Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 72 of 91
Found at i:16273255 original size:20 final size:20
Alignment explanation
Indices: 16273230--16274182 Score: 435
Period size: 20 Copynumber: 42.7 Consensus size: 20
16273220 TAACCGAAAT
16273230 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
16273250 GCATGAAAGGATGCCATAAATGAAAT
1 GCATGAAAGGATG-CAT---T--AAG
16273276 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
16273296 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
16273316 GCATGAAATGATGCATTTAG
1 GCATGAAAGGATGCATTAAG
*
16273336 GCATGAAAGGATGCACTAAG
1 GCATGAAAGGATGCATTAAG
*
16273356 GCATGAAAGGATGCCATAACTGAAAT
1 GCATGAAAGGATG-CAT---T--AAG
16273382 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
16273402 GCATGAAAGGATACCATAAATGAAAT
1 GCATGAAAGGAT-GCAT---T--AAG
*
16273428 ACATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
16273448 G--TGATAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
*
16273473 GCATGAACA-GTTGCATTAAG
1 GCATGAA-AGGATGCATTAAG
*
16273493 GCATGAAAGGATGCCATAAATGAAAT
1 GCATGAAAGGATG-CAT---T--AAG
*
16273519 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
16273539 GCATGAAAGGATGTCATAACTAA-
1 GCATGAAAGGATG-CAT---TAAG
** * *
16273562 AAATGTATTAACAGATGTATTAAG
1 GCATG-A--AA-GGATGCATTAAG
* *
16273586 GCATGAAAGAATGCATTTAG
1 GCATGAAAGGATGCATTAAG
* * *
16273606 GCGTGAAATGATGCACTAAG
1 GCATGAAAGGATGCATTAAG
16273626 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
16273646 GTATGAAACGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
16273666 GCATGAAAGGATGCCATAAATGAAAT
1 GCATGAAAGGATG-CAT---T--AAG
* *
16273692 GCATGAAATGATGCATTAGG
1 GCATGAAAGGATGCATTAAG
* *
16273712 GCATTAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
*
16273739 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
16273759 GCATGAAAGGATGTCATAAATGAAAT
1 GCATGAAAGGATG-CAT---T--AAG
16273785 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
16273805 GCATGAAAAGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
16273825 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
16273845 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
* *
16273872 GTATGAACA-GATGTATTAAG
1 GCATGAA-AGGATGCATTAAG
* *
16273892 GCTTGAAAGGATGCCATAACTGAAAT
1 GCATGAAAGGATG-CAT---T--AAG
16273918 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
16273938 GCATGAAAGGATGCCATAAATGAAAT
1 GCATGAAAGGATG-CAT---T--AAG
**
16273964 GCATGAAATAATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
16273984 GCATGAAAAGATGCCATAACTAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
*
16274011 GCATGAACA-AATGCATTAAG
1 GCATGAA-AGGATGCATTAAG
* *
16274031 GAATGAAAGGATGTCATAAATGAAAT
1 GCATGAAAGGATG-CAT---T--AAG
16274057 GCATGAAAGGAT-CAATTAAG
1 GCATGAAAGGATGC-ATTAAG
*
16274077 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
* * *
16274103 GCATGAATGAATACATTAAG
1 GCATGAAAGGATGCATTAAG
* *
16274123 CCATGAAAGGATGCTATAAATGAAAT
1 GCATGAAAGGATGC-AT---T--AAG
*
16274149 GCATGAAAGAATGCATTAAG
1 GCATGAAAGGATGCATTAAG
16274169 GCATGAAAGGATGC
1 GCATGAAAGGATGC
16274183 CATAAATGAA
Statistics
Matches: 718, Mismatches: 102, Indels: 226
0.69 0.10 0.22
Matches are distributed among these distances:
18 9 0.01
19 6 0.01
20 364 0.51
21 43 0.06
22 13 0.02
23 11 0.02
24 22 0.03
25 34 0.05
26 167 0.23
27 46 0.06
28 3 0.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:16273763 original size:93 final size:91
Alignment explanation
Indices: 16273609--16274187 Score: 718
Period size: 93 Copynumber: 6.4 Consensus size: 91
16273599 CATTTAGGCG
* * * *
16273609 TGAAATGATGCACTAAGGCATGAAAGGATG-CAT---T--AAGGTATGAAACGATGCATTAAGGC
1 TGAAA-GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGC
16273668 ATGAAAGGATGCCATAAATGAAATGCA
65 ATGAAAGGATGCCATAAATGAAATGCA
* * *
16273695 TGAAATGATGCATTAGGGCATTAAAGGATGCCATAACTAAAAATGCATGAAATGATGCATTAAGG
1 TGAAA-GATGCATTAAGGCATGAAAGGATGCCATAACT-AAAATGCATGAAAGGATGCATTAAGG
*
16273760 CATGAAAGGATGTCATAAATGAAATGCA
64 CATGAAAGGATGCCATAAATGAAATGCA
* *
16273788 TGAAAGGATGCATTAAGGCATGAAAAGATG-CAT---T--AAGGCATGAAAGGATGCATTAAGGC
1 TGAAA-GATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGC
* * *
16273847 ATGAAAGGATGCCATAACTAAAAATGTA
65 ATGAAAGGATGCCATAAAT-GAAATGCA
* * *
16273875 TGAACAGATGTATTAAGGCTTGAAAGGATGCCATAACTGAAATGCATGAAAGGATGCATTAAGGC
1 TGAA-AGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGC
16273940 ATGAAAGGATGCCATAAATGAAATGCA
65 ATGAAAGGATGCCATAAATGAAATGCA
* * *
16273967 TGAAATAATGCATTAAGGCATGAAAAGATGCCATAACTAAAAATGCATGAACA-AATGCATTAAG
1 TGAAA-GATGCATTAAGGCATGAAAGGATGCCATAACT-AAAATGCATGAA-AGGATGCATTAAG
* *
16274031 GAATGAAAGGATGTCATAAATGAAATGCA
63 GCATGAAAGGATGCCATAAATGAAATGCA
* * * *
16274060 TGAAAGGAT-CAATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAATGAATACATTAAGC
1 TGAAA-GATGC-ATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGG
*
16274124 CATGAAAGGATGCTATAAATGAAATGCA
64 CATGAAAGGATGCCATAAATGAAATGCA
16274152 TGAAAGAATGCATTAAGGCATGAAAGGATGCCATAA
1 TGAAAG-ATGCATTAAGGCATGAAAGGATGCCATAA
16274188 ATGAAATTAA
Statistics
Matches: 430, Mismatches: 41, Indels: 38
0.84 0.08 0.07
Matches are distributed among these distances:
86 67 0.16
87 34 0.08
88 4 0.01
89 1 0.00
90 1 0.00
91 3 0.01
92 121 0.28
93 198 0.46
94 1 0.00
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.22
Consensus pattern (91 bp):
TGAAAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCA
TGAAAGGATGCCATAAATGAAATGCA
Found at i:16280838 original size:81 final size:81
Alignment explanation
Indices: 16280700--16281522 Score: 1047
Period size: 81 Copynumber: 10.1 Consensus size: 81
16280690 GTAGTTCTAA
* * *
16280700 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGAAGAAATGTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
16280765 CGGTTAAATACCGTTG
66 CGGTTAAATACCGTTG
* * * *
16280781 AGTAAAATATTACTGGCCTAGTTATGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
16280846 TGGTTAAATACCGTTG
66 CGGTTAAATACCGTTG
* * * * *
16280862 AGTAAAAGATTAATGATTAATGGCCTAGCTGTGCATTTGGCACATAGGTGTTAATTATGTCAGTT
1 AGT---A-A--AA-GATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTT
16280927 AGATGAACGGTTAAATACCGTTG
59 AGATGAACGGTTAAATACCGTTG
* * * *
16280950 ACTAAAAGATTAATAGCCTAGTTGTGCATTTGTCAGAAAGGTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * *
16281015 TGATTAAATA-CG-GG
66 CGGTTAAATACCGTTG
* *
16281029 AGTAAAAGATTAATGGCCTAGTTGTACATTTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
16281094 GGGTTAATTACCGTTG
66 CGGTTAAATACCGTTG
* *
16281110 AGTAAAAGATTAATGGGCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
16281175 CGGTTAAATACCGTTG
66 CGGTTAAATACCGTTG
* * * *
16281191 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGAAAAAAAAGTGTCAATTATGCCAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGG-CAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
16281256 ACGGTTAAATAGCGTTG
65 ACGGTTAAATACCGTTG
* ** *
16281273 AGTAAAAGATTAATGGCCTACTTGTGCATTTTTCAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
16281338 CGGTTAAATATCGTTG
66 CGGTTAAATACCGTTG
* * * * *
16281354 AGTAAACGATTAATGGCCTAGCTGTGCATTTGGAAGAAATGTGTCAATTACGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
** *
16281419 TAGTTAAATATCGTTG
66 CGGTTAAATACCGTTG
* * * * * * * *
16281435 AGTAAAAGATTAATGGCCAAGCTGTGCATTTGGAATAAAAGTTTCAATTATGCAAATTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* * * *
16281500 AGGCTAAATGCCTTTG
66 CGGTTAAATACCGTTG
*
16281516 GGTAAAA
1 AGTAAAA
16281523 TACTAAAGGA
Statistics
Matches: 653, Mismatches: 79, Indels: 20
0.87 0.11 0.03
Matches are distributed among these distances:
79 69 0.11
80 4 0.01
81 432 0.66
82 75 0.11
84 2 0.00
85 2 0.00
87 2 0.00
88 67 0.10
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
CGGTTAAATACCGTTG
Found at i:16281382 original size:244 final size:242
Alignment explanation
Indices: 16280700--16281508 Score: 1089
Period size: 244 Copynumber: 3.3 Consensus size: 242
16280690 GTAGTTCTAA
* * *
16280700 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGAAGAAATGTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGAAGAAAAGTGTCAATTATGCCAGTTAGATGAA
* * * *
16280765 CGGTTAAATACCGTTGAGTAAAATATTACTGGCCTAGTTATGCATTTGGCATAAAGGTGTCAATT
66 CGGTTAAATA-CGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATT
*
16280830 ATGCCAGTTAGATGAATGGTTAAATACCGTTGAGTAAAAGATTAATGATTAATGGCCTAGCTGTG
130 ATGCCAGTTAGATGAACGGTTAAATACCGTTGAGT---A-A--AA-GATTAATGGCCTAGCTGTG
* * * * *
16280895 CATTTGGCACATAGGTGTTAATTATGTCAGTTAGATGAACGGTTAAATACCGTTG
188 CATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * * ** * *
16280950 ACTAAAAGATTAATAGCCTAGTTGTGCATTTGTCAGAAAGGTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGAAGAAAAGTGTCAATTATGCCAGTTAGATGAA
* * * *
16281015 TGATTAAATACG-GGAGTAAAAGATTAATGGCCTAGTTGTACATTTGGCAGAAAGGTGTCAATTA
66 CGGTTAAATACGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTA
* * * * *
16281079 TGTCAGTTAGATGAAGGGTTAATTACCGTTGAGTAAAAGATTAATGGGCTAGTTGTGCATTTGGC
131 TGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGC
16281144 AGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
196 AGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
*
16281191 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGAAAAAAAAGTGTCAATTATGCCAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGG-AAGAAAAGTGTCAATTATGCCAGTTAGATGA
* ** *
16281256 ACGGTTAAATAGCGTTGAGTAAAAGATTAATGGCCTACTTGTGCATTTTTCAGAAATGTGTCAAT
65 ACGGTTAAATA-CGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAAT
* *
16281321 TATGCCAGTTAGATGAACGGTTAAATATCGTTGAGTAAACGATTAATGGCCTAGCTGTGCATTTG
129 TATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTG
* * ** *
16281386 GAAGAAATGTGTCAATTACGCCAGTTAGATGAATAGTTAAATATCGTTG
194 GCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* * * * *
16281435 AGTAAAAGATTAATGGCCAAGCTGTGCATTTGGAATAAAAGTTTCAATTATGCAAATTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGAAGAAAAGTGTCAATTATGCCAGTTAGATGAA
* *
16281500 AGGCTAAAT
66 CGGTTAAAT
16281509 GCCTTTGGGT
Statistics
Matches: 498, Mismatches: 58, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
241 96 0.19
242 38 0.08
243 37 0.07
244 179 0.36
245 1 0.00
248 77 0.15
249 2 0.00
250 68 0.14
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (242 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGAAGAAAAGTGTCAATTATGCCAGTTAGATGAA
CGGTTAAATACGTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTA
TGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGC
AGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
Found at i:16288336 original size:2 final size:2
Alignment explanation
Indices: 16288331--16288377 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
16288321 TATATATATA
* *
16288331 TG TG TG TG TG TG TG TG TG TG TG TG TG TG GG TG TG TG TG TG TT
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
16288373 TG TG T
1 TG TG T
16288378 ATATGTGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:16288398 original size:8 final size:8
Alignment explanation
Indices: 16288387--16288421 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
16288377 TATATGTGTA
16288387 TATGCATG
1 TATGCATG
16288395 TATGCATG
1 TATGCATG
16288403 TATGCATG
1 TATGCATG
*
16288411 TATGTATG
1 TATGCATG
16288419 TAT
1 TAT
16288422 ATATGAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.43
Consensus pattern (8 bp):
TATGCATG
Found at i:16288398 original size:16 final size:16
Alignment explanation
Indices: 16288379--16288417 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16288369 TGTTTGTGTA
*
16288379 TATGTGTATATGCATG
1 TATGTATATATGCATG
* *
16288395 TATGCATGTATGCATG
1 TATGTATATATGCATG
16288411 TATGTAT
1 TATGTAT
16288418 GTATATATGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.44
Consensus pattern (16 bp):
TATGTATATATGCATG
Found at i:16300948 original size:20 final size:21
Alignment explanation
Indices: 16300924--16300983 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
16300914 CAGAACCCTA
* *
16300924 GGGGGGTATCGATTCCC-CTG
1 GGGGGGAATCGATTCCCTCAG
*
16300944 TGGGGGGAATCGGTTCCCTCAG
1 -GGGGGGAATCGATTCCCTCAG
16300966 GGGGGG-ATCGATTCCCTC
1 GGGGGGAATCGATTCCCTC
16300984 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 11 0.32
21 21 0.62
22 2 0.06
ACGTcount: A:0.12, C:0.25, G:0.40, T:0.23
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCTCAG
Found at i:16300950 original size:21 final size:20
Alignment explanation
Indices: 16300919--16300983 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
16300909 AAAACCAGAA
*
16300919 CCCT-AGGGGGGTATCGATT
1 CCCTCAGGGGGGGATCGATT
* *
16300938 CCC-CTGTGGGGGGAATCGGTT
1 CCCTCAG-GGGGGG-ATCGATT
16300959 CCCTCAGGGGGGGATCGATT
1 CCCTCAGGGGGGGATCGATT
16300979 CCCTC
1 CCCTC
16300984 TGCACCAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 4 0.11
20 16 0.43
21 15 0.41
22 2 0.05
ACGTcount: A:0.12, C:0.28, G:0.37, T:0.23
Consensus pattern (20 bp):
CCCTCAGGGGGGGATCGATT
Found at i:16307516 original size:40 final size:40
Alignment explanation
Indices: 16307461--16307542 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
16307451 TGCAGGTTTA
16307461 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
16307501 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
16307541 TA
1 TA
16307543 GCACTACAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:16307717 original size:47 final size:45
Alignment explanation
Indices: 16307646--16307767 Score: 127
Period size: 48 Copynumber: 2.6 Consensus size: 45
16307636 GTAACCATGC
*
16307646 AAATAAGCTTAAGAGCTTACGGAATAATGGCAAGTATATTGAAAAAA
1 AAATAAGCTTAAGAGCTTATGGAATAATGGCAAGTATATTG--AAAA
* * * **
16307693 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTAA
1 AAATAAGCTTAAGAGCTTATGGAA--T-AATGGCAAGTATATTGAAAA
* *
16307741 AAATAAGCTTATGAGCTTATGGGATAA
1 AAATAAGCTTAAGAGCTTATGGAATAA
16307768 AAGGTAAGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
45 2 0.03
46 1 0.02
47 22 0.34
48 24 0.38
49 1 0.02
50 14 0.22
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTAAGAGCTTATGGAATAATGGCAAGTATATTGAAAA
Found at i:16314789 original size:46 final size:47
Alignment explanation
Indices: 16314736--16314848 Score: 131
Period size: 46 Copynumber: 2.4 Consensus size: 47
16314726 GTAATCATGC
16314736 AAATAAGCTTATGAGCTTACGGAA-T-AATGACAAGTATATTGGAAAA
1 AAATAAGCTTATGAGCTTACGGAATTAAATGACAAGTATATTGG-AAA
* * * ** * *
16314782 AAATAAGCTTACGAGATTATGGAATTTAAATGGTAAGTATTTTGGTAA
1 AAATAAGCTTATGAGCTTACGGAA-TTAAATGACAAGTATATTGGAAA
16314830 AAATAAGCTTATGAGCTTA
1 AAATAAGCTTATGAGCTTA
16314849 TGGGATAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
46 21 0.38
48 20 0.36
49 14 0.25
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.31
Consensus pattern (47 bp):
AAATAAGCTTATGAGCTTACGGAATTAAATGACAAGTATATTGGAAA
Found at i:16325426 original size:16 final size:17
Alignment explanation
Indices: 16325398--16325429 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16325388 ATCGCCGATA
16325398 AAATTTCACTATTCACG
1 AAATTTCACTATTCACG
16325415 AAATTT-ACTATTCAC
1 AAATTTCACTATTCAC
16325430 ATGAATAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTTCACTATTCACG
Found at i:16330894 original size:34 final size:34
Alignment explanation
Indices: 16330835--16330901 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
16330825 TTCTTGAGAG
*
16330835 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTTA
1 TTGTTTTCTCCTTTTGATC-AGAGAGAAGTTGTTA
16330869 TTGTTTTCTCCTTGTTAGATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-GATCAGAGAGAAGTTGT
16330902 AATTCATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 20 0.69
35 6 0.21
36 3 0.10
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAGAAGTTGTTA
Found at i:16335001 original size:23 final size:24
Alignment explanation
Indices: 16334961--16335006 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
16334951 TGTTCTAATC
16334961 TTTTTCATGTTAACTTTT-TTTCT
1 TTTTTCATGTTAACTTTTATTTCT
* * *
16334984 TTTTTCATTTTTAGTTTTATTTC
1 TTTTTCATGTTAACTTTTATTTC
16335007 ATTTCATGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.13, C:0.11, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTTCATGTTAACTTTTATTTCT
Found at i:16341568 original size:45 final size:45
Alignment explanation
Indices: 16341514--16341796 Score: 395
Period size: 45 Copynumber: 6.3 Consensus size: 45
16341504 ATTATTCATT
* * * *
16341514 ATTTCCATTTATGACATCCTTTCACGCCTTTATTGCACCGTTATGC
1 ATTT-CATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGC
* *
16341560 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACTATTATGA
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGC
* * ***
16341605 ATTTCATTTATGGTATCCTTTAATGCCTTTAATGCATTGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGC
* *
16341650 ATTTCATTTATGGCACCCTTTCATACCTTTAATGCACCATTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGC
* **
16341695 ATTTCATTTATCGCATCCTTTTGTGCCTTTAATGCACCATTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGC
* *
16341740 ATTTCATTTATGACATCCTTTCATGCCTTTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGC
16341785 ATTTCATTTATG
1 ATTTCATTTATG
16341797 TAATAAAAAC
Statistics
Matches: 209, Mismatches: 28, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
45 205 0.98
46 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.44
Consensus pattern (45 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGC
Found at i:16346759 original size:18 final size:18
Alignment explanation
Indices: 16346736--16346771 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
16346726 ACCCGTCTCG
16346736 CCACATTGAAAACAAGCT
1 CCACATTGAAAACAAGCT
*
16346754 CCACATTGGAAACAAGCT
1 CCACATTGAAAACAAGCT
16346772 TCACTAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.28, G:0.14, T:0.17
Consensus pattern (18 bp):
CCACATTGAAAACAAGCT
Found at i:16360608 original size:45 final size:45
Alignment explanation
Indices: 16360543--16360823 Score: 373
Period size: 45 Copynumber: 6.2 Consensus size: 45
16360533 AATATTCATT
* * *
16360543 ATTTCAATTTATGGCATCCTTTCATGCCTCTAATGCCCCGTTATGC
1 ATTTC-ATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGC
* * *
16360589 ATTTCATTTATGGTATCCTTTCATGCCTTTAATGCACTATTATGA
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGC
* * * * *
16360634 ATTTCATTTATGGTATCATTTCATTCCTTTAATGTACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGC
* *
16360679 ATTTCATTTATGGCATCTTTTCATGCCTTTAATGTACCATTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGC
* *
16360724 ATTTCATTTATGGCATCCTTTTATGCCTTTAATGCATCATTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGC
* * * * *
16360769 ATTTTATTTATGGCATCTTTTCATGTCATTAATGCACCGTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGC
16360814 ATTTCATTTA
1 ATTTCATTTA
16360824 CGTAATAAAA
Statistics
Matches: 207, Mismatches: 28, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
45 202 0.98
46 5 0.02
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.46
Consensus pattern (45 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGC
Found at i:16361288 original size:95 final size:95
Alignment explanation
Indices: 16361189--16361363 Score: 237
Period size: 95 Copynumber: 1.8 Consensus size: 95
16361179 CCTTACCATG
* ** *
16361189 GTATCGATACTTCCATACTATTTTA-TCGATACGCCCTTTCAGTATCGATACCATTTGT-ATATT
1 GTATCGATACTACCATACTATGGTACT-GATACGCCCTTTCAGTATCGATACCATTT-TAACATT
* *
16361252 CTGTAATTCATGGTATCGACACCTTTTTCTCA
64 ATGTAATCCATGGTATCGACACCTTTTTCTCA
* * *
16361284 GTATCGATACTACTATACTATGGTACTGATACTCCTTTTCAGTATCGATACCATTTTAACATTAT
1 GTATCGATACTACCATACTATGGTACTGATACGCCCTTTCAGTATCGATACCATTTTAACATTAT
16361349 GTAATCCATGGTATC
66 GTAATCCATGGTATC
16361364 TATACTTTCC
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
94 1 0.01
95 67 0.97
96 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (95 bp):
GTATCGATACTACCATACTATGGTACTGATACGCCCTTTCAGTATCGATACCATTTTAACATTAT
GTAATCCATGGTATCGACACCTTTTTCTCA
Found at i:16363948 original size:30 final size:30
Alignment explanation
Indices: 16363900--16364066 Score: 146
Period size: 30 Copynumber: 5.6 Consensus size: 30
16363890 AAATATGATT
*
16363900 AACAGAAACTT-GAGGACTAAAATAG-AAA
1 AACAGAAACTTAAAGGACTAAAATAGCAAA
* *
16363928 AACCAGAAACATAAAGGACTAAAATAGCACA
1 AA-CAGAAACTTAAAGGACTAAAATAGCAAA
* * * *
16363959 AACATAAACTTAAAGGACCAAAATAACACA
1 AACAGAAACTTAAAGGACTAAAATAGCAAA
* * *
16363989 AAC-GTGAACTTAAAAGACTAAAATAGTAAA
1 AACAG-AAACTTAAAGGACTAAAATAGCAAA
* *
16364019 AATAGAAACTTAAAGGGCTAAACA-A-CAAA
1 AACAGAAACTTAAAGGACTAAA-ATAGCAAA
* *
16364048 AATAGAAACTTGAAGGACT
1 AACAGAAACTTAAAGGACT
16364067 TAAACAACAA
Statistics
Matches: 112, Mismatches: 21, Indels: 11
0.78 0.15 0.08
Matches are distributed among these distances:
28 2 0.02
29 28 0.25
30 76 0.68
31 6 0.05
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.15
Consensus pattern (30 bp):
AACAGAAACTTAAAGGACTAAAATAGCAAA
Found at i:16364049 original size:29 final size:30
Alignment explanation
Indices: 16364016--16364076 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
16364006 CTAAAATAGT
*
16364016 AAAAATAGAAACTTAAAGGGC-TAAACAAC
1 AAAAATAGAAACTTAAAGGACTTAAACAAC
*
16364045 AAAAATAGAAACTTGAAGGACTTAAACAAC
1 AAAAATAGAAACTTAAAGGACTTAAACAAC
16364075 AA
1 AA
16364077 TTACAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.59, C:0.13, G:0.13, T:0.15
Consensus pattern (30 bp):
AAAAATAGAAACTTAAAGGACTTAAACAAC
Found at i:16366356 original size:37 final size:37
Alignment explanation
Indices: 16366310--16366434 Score: 162
Period size: 37 Copynumber: 3.4 Consensus size: 37
16366300 ATTTCTCAAG
* * * *
16366310 AAAACTGTCTCAAGAGAGACAAAACTTT-ATTTTGAGA
1 AAAATTGTCTCAAGAGAGACAAAA-TTTGTTTTTAAAA
* *
16366347 GAAATTGTCTCAAGCGAGACAAAATTTGTTTTTAAAAA
1 AAAATTGTCTCAAGAGAGACAAAATTTGTTTTT-AAAA
*
16366385 AAAATTGTCTCAAGAGAGACAAAATTTGTTTTTTAAA
1 AAAATTGTCTCAAGAGAGACAAAATTTGTTTTTAAAA
16366422 AAAATTGTCTCAA
1 AAAATTGTCTCAA
16366435 AGGTGACAAC
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
36 3 0.04
37 41 0.53
38 33 0.43
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (37 bp):
AAAATTGTCTCAAGAGAGACAAAATTTGTTTTTAAAA
Found at i:16367622 original size:2 final size:2
Alignment explanation
Indices: 16367617--16367668 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
16367607 ACACACACAC
*
16367617 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16367659 AT AT AT -T AT A
1 AT AT AT AT AT A
16367669 ATTACCTTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16370442 original size:22 final size:22
Alignment explanation
Indices: 16370411--16370464 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
16370401 ACTGTTTGAC
*
16370411 TGAAATTTTTTATCTCTTCTTG
1 TGAAAATTTTTATCTCTTCTTG
*
16370433 TGAAAATTTTTATTTCTTCTTG
1 TGAAAATTTTTATCTCTTCTTG
*
16370455 TGACAATTTT
1 TGAAAATTTT
16370465 CTCTCAAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.57
Consensus pattern (22 bp):
TGAAAATTTTTATCTCTTCTTG
Found at i:16372419 original size:30 final size:29
Alignment explanation
Indices: 16372384--16372536 Score: 146
Period size: 30 Copynumber: 5.1 Consensus size: 29
16372374 AGAACAATAA
16372384 AAAATAGAAAAAATAGAAACTTAAAGGAGT
1 AAAATAGAAAAAATAGAAACTTAAAGGA-T
* *
16372414 AAAATAGCACAAATAGAAACTTAAAGGAT
1 AAAATAGAAAAAATAGAAACTTAAAGGAT
* * * * *
16372443 CGAAATAGCATAAACAGGAACTTAAAGGACT
1 -AAAATAGAAAAAATAGAAACTTAAAGGA-T
*
16372474 AAAATAGAAAAAATAGAAACTTAAAGTGCT
1 AAAATAGAAAAAATAGAAACTTAAAG-GAT
* * * *
16372504 -AAATAGCAAAAACAGAAAGTTGAAGGACT
1 AAAATAGAAAAAATAGAAACTTAAAGGA-T
16372533 AAAA
1 AAAA
16372537 CAACAATTTC
Statistics
Matches: 101, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
28 1 0.01
29 23 0.23
30 75 0.74
31 2 0.02
ACGTcount: A:0.58, C:0.09, G:0.16, T:0.16
Consensus pattern (29 bp):
AAAATAGAAAAAATAGAAACTTAAAGGAT
Found at i:16373137 original size:2 final size:2
Alignment explanation
Indices: 16373130--16373155 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16373120 ACAGAAATGA
16373130 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
16373156 TTGAATACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16374057 original size:3 final size:3
Alignment explanation
Indices: 16374033--16374133 Score: 123
Period size: 3 Copynumber: 32.3 Consensus size: 3
16374023 GTAAGATGTA
* * *
16374033 AAT AAT ATT AAT AAA AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16374081 AAT AAT AAT AAT AAT AAT AAT AAAT ATAT ATAT ATAT AAT AAT -AT AATT
1 AAT AAT AAT AAT AAT AAT AAT -AAT A-AT A-AT A-AT AAT AAT AAT AA-T
16374130 AAT A
1 AAT A
16374134 TCCAGACAAA
Statistics
Matches: 89, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
2 2 0.02
3 70 0.79
4 17 0.19
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:16382373 original size:20 final size:18
Alignment explanation
Indices: 16382334--16382374 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 18
16382324 TTTTTGTAAG
16382334 TTAAATTATTATTTATTT
1 TTAAATTATTATTTATTT
16382352 TTAAATATATTTATTATATTT
1 TTAAAT-TA-TTATT-TATTT
16382373 TT
1 TT
16382375 GGATAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 2 0.10
20 5 0.25
21 7 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTAAATTATTATTTATTT
Found at i:16388053 original size:27 final size:26
Alignment explanation
Indices: 16388023--16388081 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
16388013 ATGCATTTTC
* *
16388023 TTTTTTACTTTAGTATATAT-TTTTAT
1 TTTTTTACATTA-TATATATATATTAT
*
16388049 TTTTTTAGATTATATATATATATTAT
1 TTTTTTACATTATATATATATATTAT
16388075 TTTTTTA
1 TTTTTTA
16388082 TTATCAGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTTTTACATTATATATATATATTAT
Found at i:16388128 original size:6 final size:6
Alignment explanation
Indices: 16388119--16388247 Score: 50
Period size: 6 Copynumber: 20.7 Consensus size: 6
16388109 ATTTACTATT
* * * *
16388119 TTTTTA TTTTTTA TTTTT- TATTTA TTTTATA TGTATA TATATTA TTTTTA
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA T-TTTTA TTTTTA
* * * *
16388169 CTTTTTTA TTATTA -TTTTA TTTATT- TGTTTTA TTTATA TATATT- TTTTTC
1 --TTTTTA TTTTTA TTTTTA TTT-TTA T-TTTTA TTTTTA T-TTTTA TTTTTA
* * *
16388219 TTTTTC TTTATTT TTTTTA TATTTA TTTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTT
16388248 ACTTACTATT
Statistics
Matches: 92, Mismatches: 18, Indels: 25
0.68 0.13 0.19
Matches are distributed among these distances:
5 11 0.12
6 50 0.54
7 25 0.27
8 6 0.07
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:16388144 original size:4 final size:4
Alignment explanation
Indices: 16388090--16388246 Score: 54
Period size: 4 Copynumber: 40.8 Consensus size: 4
16388080 TATTATCAGT
* * * * *
16388090 TTTA TTAA TTTA TATA TATA TTTA -CTA TTTT TTTA TTT- TTTA TTT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
16388135 TTTA TTTA TTT- TATA TGTA TATA TATTA -TT- TTTA CTTT- TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA -TTTA TTTA TTTA
* *
16388180 -TTA TTTTA TTTA TTTGT TTTA TTTA TATATA TTT- TTT- TCTT- TTTC
1 TTTA -TTTA TTTA TTT-A TTTA TTTA T-T-TA TTTA TTTA T-TTA TTTA
16388225 TTTA TTT- TTT- TTATA TTTA TTT
1 TTTA TTTA TTTA TT-TA TTTA TTT
16388247 TACTTACTAT
Statistics
Matches: 120, Mismatches: 15, Indels: 36
0.70 0.09 0.21
Matches are distributed among these distances:
3 34 0.28
4 68 0.57
5 15 0.12
6 3 0.03
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:16388202 original size:38 final size:36
Alignment explanation
Indices: 16388115--16388247 Score: 94
Period size: 38 Copynumber: 3.6 Consensus size: 36
16388105 ATATATTTAC
16388115 TATTTTTTTATTTTTTATTTTTTATTTATTTTATATG
1 TATTTTTTTA-TTTTTATTTTTTATTTATTTTATATG
* *
16388152 TATATATATTATTTTTACTTTTTTATTATTATTTTAT-T-
1 TAT-TTTTTTATTTTTA-TTTTTTA-T-TTATTTTATATG
* * * *
16388190 TATTTGTTTTATTTATATATATTTT-TTTCTTTT-TCTT
1 TATTT-TTTTATTT-T-TATTTTTTATTTATTTTATATG
*
16388227 TATTTTTTTTATATTTATTTT
1 TA-TTTTTTTATTTTTATTTT
16388248 ACTTACTATT
Statistics
Matches: 78, Mismatches: 8, Indels: 22
0.72 0.07 0.20
Matches are distributed among these distances:
35 6 0.08
36 8 0.10
37 20 0.26
38 25 0.32
39 8 0.10
40 11 0.14
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (36 bp):
TATTTTTTTATTTTTATTTTTTATTTATTTTATATG
Found at i:16388216 original size:95 final size:96
Alignment explanation
Indices: 16388040--16388300 Score: 236
Period size: 95 Copynumber: 2.7 Consensus size: 96
16388030 CTTTAGTATA
* * * * * *
16388040 TATTTTTATTT-TTTTAGATTATATATA-TA-TATTATTTTTTTATTATCAGTTTTATTAATTT-
1 TATTTTTATTTATTTTATATTATATATATTATTTTTACTTTTTTATTATTACTTTTATTTATTTG
* * *
16388101 ATATATATATTTACTATTTTTT-TATTT-TT
66 TTTTATATATATACTATTTTTTCTATTTCTT
16388130 TATTTTTTATTTATTTTATATGTATATATATTATTTTTACTTTTTTATTATTA-TTTTATTTATT
1 TA-TTTTTATTTATTTTATAT-TATATATATTATTTTTACTTTTTTATTATTACTTTTATTTATT
* *
16388194 TGTTTTATTTATATA-TATTTTTTTCTTTTTCTT
64 TGTTTTATATATATACTA-TTTTTTCTATTTCTT
* * *
16388227 TATTTTT-TTTATATTTATTTTACTTACTATTTTATCTTTACTTTATTTA-TATTATCTTTTATT
1 TATTTTTATTTAT-TTTATATTA--TA-TATATTATTTTTACTTT-TTTATTATTA-CTTTTATT
16388290 TAATTTGTTTT
60 T-ATTTGTTTT
16388301 TTCTTCATTT
Statistics
Matches: 141, Mismatches: 13, Indels: 23
0.80 0.07 0.13
Matches are distributed among these distances:
90 2 0.01
91 9 0.06
92 7 0.05
93 8 0.06
94 15 0.11
95 38 0.27
96 15 0.11
97 6 0.04
98 20 0.14
99 4 0.03
100 8 0.06
101 9 0.06
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (96 bp):
TATTTTTATTTATTTTATATTATATATATTATTTTTACTTTTTTATTATTACTTTTATTTATTTG
TTTTATATATATACTATTTTTTCTATTTCTT
Found at i:16388223 original size:101 final size:100
Alignment explanation
Indices: 16388097--16388300 Score: 233
Period size: 100 Copynumber: 2.0 Consensus size: 100
16388087 AGTTTTATTA
*
16388097 ATTTATATATATATTTACTATT-TTTTTATTT-TTTATTTTT-TATTTATTTTATATGTA-TATA
1 ATTTATATATAT-TTT--T-TTCTTTTTCTTTATTT-TTTTTATATTTATTTTA-AT-TACTAT-
*
16388158 TATTATTTTTACTTT-TTTATTATTA-TTTTATTT-ATTTGTTTT
58 T-TTATCTTTACTTTATTTA-TATTACTTTTATTTAATTTGTTTT
*
16388200 ATTTATATATATTTTTTTCTTTTTCTTTATTTTTTTTATATTTATTTTACTTACTATTTTATCTT
1 ATTTATATATATTTTTTTCTTTTTCTTTATTTTTTTTATATTTATTTTAATTACTATTTTATCTT
16388265 TACTTTATTTATATTATCTTTTATTTAATTTGTTTT
66 TACTTTATTTATATTA-CTTTTATTTAATTTGTTTT
16388301 TTCTTCATTT
Statistics
Matches: 90, Mismatches: 3, Indels: 18
0.81 0.03 0.16
Matches are distributed among these distances:
98 17 0.19
99 9 0.10
100 26 0.29
101 23 0.26
102 3 0.03
103 12 0.13
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.72
Consensus pattern (100 bp):
ATTTATATATATTTTTTTCTTTTTCTTTATTTTTTTTATATTTATTTTAATTACTATTTTATCTT
TACTTTATTTATATTACTTTTATTTAATTTGTTTT
Found at i:16388230 original size:49 final size:48
Alignment explanation
Indices: 16388125--16388248 Score: 148
Period size: 49 Copynumber: 2.5 Consensus size: 48
16388115 TATTTTTTTA
*
16388125 TTTTTTATTTTTTATTTA-TTTTATATGTATATATATTATTTTTACTT
1 TTTTTTATTTTTTATTTATTTTTTTATGTATATATATTATTTTTACTT
*
16388172 TTTTATTATTATTTTATTTATTTGTTTTATTTATATATATT-TTTTT-CTT
1 TTTT-TTATT-TTTTATTTATTT-TTTTATGTATATATATTATTTTTACTT
16388221 TTTCTTTATTTTTT-TTATATTTATTTTA
1 TTT-TTTATTTTTTATT-TATTT-TTTTA
16388249 CTTACTATTT
Statistics
Matches: 68, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
47 6 0.09
48 19 0.28
49 20 0.29
50 8 0.12
51 15 0.22
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (48 bp):
TTTTTTATTTTTTATTTATTTTTTTATGTATATATATTATTTTTACTT
Found at i:16388232 original size:15 final size:15
Alignment explanation
Indices: 16388106--16388247 Score: 58
Period size: 17 Copynumber: 8.8 Consensus size: 15
16388096 AATTTATATA
16388106 TATATTTACTATTTTTT
1 TATATTTA-T-TTTTTT
*
16388123 TAT-TTT-TTATTTT
1 TATATTTATTTTTTT
*
16388136 T-TATTTATTTTATATG
1 TATATTTATTTT-T-TT
* *
16388152 TATATATATTATTTT
1 TATATTTATTTTTTT
*
16388167 TACTTTTTTATTATTATTT
1 TA--TATTTATT-TT-TTT
*
16388186 TATTTATTTGTTTTATTT
1 TA--TATTTATTTT-TTT
16388204 ATATATATT-TTTTTCTT
1 -TATAT-TTATTTTT-TT
* *
16388221 TTTCTTTATTTTTTT
1 TATATTTATTTTTTT
16388236 TATATTTATTTT
1 TATATTTATTTT
16388248 ACTTACTATT
Statistics
Matches: 96, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
12 1 0.01
13 9 0.09
14 4 0.04
15 18 0.19
16 15 0.16
17 26 0.27
18 9 0.09
19 14 0.15
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (15 bp):
TATATTTATTTTTTT
Found at i:16391421 original size:14 final size:13
Alignment explanation
Indices: 16391399--16391451 Score: 72
Period size: 13 Copynumber: 4.0 Consensus size: 13
16391389 TTAATCAAAG
16391399 AAAAAAGAGAAAA
1 AAAAAAGAGAAAA
16391412 AAACAAAGAGAAAA
1 AAA-AAAGAGAAAA
*
16391426 TAAAAAGAGAAAA
1 AAAAAAGAGAAAA
16391439 AAATAAAGA-AAAA
1 AAA-AAAGAGAAAA
16391452 TTGAAGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
13 19 0.53
14 17 0.47
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (13 bp):
AAAAAAGAGAAAA
Found at i:16391432 original size:13 final size:14
Alignment explanation
Indices: 16391402--16391451 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
16391392 ATCAAAGAAA
16391402 AAAGAGAAAAAAAC
1 AAAGAGAAAAAAAC
*
16391416 AAAGAGAAAATAA-
1 AAAGAGAAAAAAAC
*
16391429 AAAGAGAAAAAAAT
1 AAAGAGAAAAAAAC
16391443 AAAGA-AAAA
1 AAAGAGAAAA
16391452 TTGAAGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
13 16 0.48
14 17 0.52
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (14 bp):
AAAGAGAAAAAAAC
Found at i:16391463 original size:25 final size:27
Alignment explanation
Indices: 16391400--16391452 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
16391390 TAATCAAAGA
16391400 AAAAAGAGAAAAAAACAAAGAGAAAAT
1 AAAAAGAGAAAAAAACAAAGAGAAAAT
*
16391427 AAAAAGAGAAAAAAATAAAGA-AAAAT
1 AAAAAGAGAAAAAAACAAAGAGAAAAT
16391453 TGAAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.79, C:0.02, G:0.13, T:0.06
Consensus pattern (27 bp):
AAAAAGAGAAAAAAACAAAGAGAAAAT
Found at i:16391643 original size:69 final size:69
Alignment explanation
Indices: 16391527--16391661 Score: 207
Period size: 69 Copynumber: 2.0 Consensus size: 69
16391517 TCAAACTATT
* * *
16391527 AGATTGATCAAGCACAATCATTTCTGAATCACTGAACCACTTCACTCGAAGATCATAGAGCATCA
1 AGATCGATCAAGCACAATCATTTCTGAATCACTAAACCACTCCACTCGAAGATCATAGAGCATCA
16391592 AATG
66 AATG
* * * *
16391596 AGATCGATCAAGCACAATCATTTCTGAATTACTAAATCACTCCACTCGAATATCATGGAGCATCA
1 AGATCGATCAAGCACAATCATTTCTGAATCACTAAACCACTCCACTCGAAGATCATAGAGCATCA
16391661 A
66 A
16391662 GAGAGAGACA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (69 bp):
AGATCGATCAAGCACAATCATTTCTGAATCACTAAACCACTCCACTCGAAGATCATAGAGCATCA
AATG
Found at i:16392634 original size:32 final size:32
Alignment explanation
Indices: 16392593--16392705 Score: 115
Period size: 32 Copynumber: 3.5 Consensus size: 32
16392583 TGAGAGCATC
16392593 TTTGAAGATTCAACATCAGATGTTGGGGCATTT
1 TTTG-AGATTCAACATCAGATGTTGGGGCATTT
* *
16392626 TTTTAGATTTC-ACATCAAATGTTGGGGCATTT
1 TTTGAGA-TTCAACATCAGATGTTGGGGCATTT
* * *
16392658 TTTGAAATTCAACATC-GAATATTGGGGCA-TC
1 TTTGAGATTCAACATCAG-ATGTTGGGGCATTT
*
16392689 TTTGGGAATTCAACATC
1 TTTGAG-ATTCAACATC
16392706 CTGATGCAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
31 8 0.12
32 53 0.79
33 6 0.09
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.37
Consensus pattern (32 bp):
TTTGAGATTCAACATCAGATGTTGGGGCATTT
Found at i:16393605 original size:106 final size:106
Alignment explanation
Indices: 16393283--16393584 Score: 417
Period size: 106 Copynumber: 2.8 Consensus size: 106
16393273 ATATCATGCC
* *
16393283 ACTCGAGACAACACAAGTTCAACTCCACAACGAAGAGATGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAATTTCCC
* *
16393348 AATTTCATAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
16393389 ACTCGAGACAACACAAGTTCAACTTCACAATGAATGGATGAG-TGGTTGTCAACAAACAATTTCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATG-GCTGGTTGTCAACAAACAATTTCC
*
16393453 CAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * * **
16393495 ACTCGAGACAGCACAAGCTCAACTTCATAGCGAAGGGGTGGCTGGCTATCAACAAACAATTTCTT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAATTTCCC
* * *
16393560 AGTTCCAGAGCCAATTTTAACTTCA
66 AATTTCAGAGCCAATTTCAACTTCA
16393585 TGGCGGAGGT
Statistics
Matches: 172, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
105 1 0.01
106 170 0.99
107 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:16393962 original size:87 final size:87
Alignment explanation
Indices: 16393862--16394040 Score: 304
Period size: 87 Copynumber: 2.1 Consensus size: 87
16393852 GACAGTTTCT
* *
16393862 CTTGAAACATAAACATTGAAATCATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATATCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
*
16393927 CTTGAAACGAAATTTTGTCTCC
66 CTTGAAACAAAATTTTGTCTCC
* * *
16393949 CTTGAAACATAAACATTGAAAACATATCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATATCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
16394014 CTTGAAACAAAATTTTGTCTCC
66 CTTGAAACAAAATTTTGTCTCC
16394036 CTTGA
1 CTTGA
16394041 GACAGTTTCT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (87 bp):
CTTGAAACATAAACATTGAAAACATATCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
CTTGAAACAAAATTTTGTCTCC
Found at i:16394048 original size:37 final size:37
Alignment explanation
Indices: 16393975--16394161 Score: 128
Period size: 37 Copynumber: 5.3 Consensus size: 37
16393965 TGAAAACATA
* * * * *
16393975 TCCCTTGAAA-TAAATTTTATCTCGCTTGGGGTAGTT
1 TCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTT
*
16394011 TCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTT
1 TCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTT
* * * *
16394048 TCTCTTGAAACATAAA---------CATTGA-AAACATT
1 TCCCTTGAAACA-AAATTTTGTCTCCCTTGAGATA-GTT
* ** *
16394077 TCCTTTGAAA-TTAATTTTGTCTCTCTTGAGATAGTT
1 TCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTT
*
16394113 TCCATTGAAACAAAATTTTGTCTCCCTTGAGATAGTT
1 TCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTT
*
16394150 TCTCTTGAAACA
1 TCCCTTGAAACA
16394162 TAAACCTTGA
Statistics
Matches: 113, Mismatches: 24, Indels: 27
0.69 0.15 0.16
Matches are distributed among these distances:
27 2 0.02
28 2 0.02
29 15 0.13
36 25 0.22
37 66 0.58
38 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (37 bp):
TCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTT
Found at i:16394059 original size:102 final size:102
Alignment explanation
Indices: 16393949--16394188 Score: 381
Period size: 102 Copynumber: 2.4 Consensus size: 102
16393939 TTTTGTCTCC
* * *
16393949 CTTGAAACATAAACATTGAAAACATATCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
*
16394014 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
66 ATTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
* * * *
16394051 CTTGAAACATAAACATTGAAAACATTTCCTTTGAAATTAATTTTGTCTCTCTTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
*
16394116 ATTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCT
66 ATTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
* *
16394153 CTTGAAACATAAACCTTGAAAACGTTTCCCTTGAAA
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
16394189 CACAAAATAT
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 126 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (102 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
ATTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
Found at i:16394330 original size:35 final size:36
Alignment explanation
Indices: 16394272--16394375 Score: 138
Period size: 36 Copynumber: 2.9 Consensus size: 36
16394262 TATTTTCCTC
* * *
16394272 GAAACAAATTTCGTCTCCCTTGAGACAGTTT-TTTA
1 GAAATAAATTTTGTCTCTCTTGAGACAGTTTCTTTA
* * *
16394307 GAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTTTT
1 GAAATAAATTTTGTCTCTCTTGAGACAGTTTCTTTA
*
16394343 GAAATAAATTTTGTCCCTCTTGAGACAGTTTCT
1 GAAATAAATTTTGTCTCTCTTGAGACAGTTTCT
16394376 CTTTAAACAC
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
35 26 0.44
36 33 0.56
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.41
Consensus pattern (36 bp):
GAAATAAATTTTGTCTCTCTTGAGACAGTTTCTTTA
Found at i:16395589 original size:24 final size:23
Alignment explanation
Indices: 16395546--16395591 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
16395536 TCATGTAATA
*
16395546 TTTTTTACATTTTATGTATTTTC
1 TTTTTTACATTTTATATATTTTC
16395569 TTTTTTAC-TTTAGTATATATTTT
1 TTTTTTACATTT--TATATATTTT
16395592 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 8 0.40
24 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTTTACATTTTATATATTTTC
Found at i:16395619 original size:33 final size:33
Alignment explanation
Indices: 16395582--16395698 Score: 112
Period size: 33 Copynumber: 3.4 Consensus size: 33
16395572 TTTACTTTAG
16395582 TATATATTTTTAT-TTTTTTAGATTATATATATA
1 TATATATTTTTATATTTTTTA-ATTATATATATA
*
16395615 TATATTTTTTTATTATCAGTTTATTAATT-TATATATA
1 TATATATTTTTA-TAT---TTT-TTAATTATATATATA
* * *
16395652 TTTACTATTTTTTTATTTTTTATTTATTATATATA
1 TATA-TATTTTTATATTTTTTAATTA-TATATATA
16395687 TATATATTTTTA
1 TATATATTTTTA
16395699 CGTTTTTATT
Statistics
Matches: 68, Mismatches: 7, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
33 16 0.24
34 11 0.16
35 12 0.18
37 14 0.21
38 12 0.18
39 3 0.04
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (33 bp):
TATATATTTTTATATTTTTTAATTATATATATA
Found at i:16395629 original size:23 final size:24
Alignment explanation
Indices: 16395582--16395630 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
16395572 TTTACTTTAG
* *
16395582 TATATATTTTTATTTTTTTAGATTA
1 TATATATATATATTTTTTTA-ATTA
16395607 TATATATATATATTTTTTT-ATTA
1 TATATATATATATTTTTTTAATTA
16395630 T
1 T
16395631 CAGTTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
25 17 0.77
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TATATATATATATTTTTTTAATTA
Found at i:16395677 original size:11 final size:11
Alignment explanation
Indices: 16395659--16395835 Score: 69
Period size: 11 Copynumber: 15.0 Consensus size: 11
16395649 ATATTTACTA
16395659 TTTT-TTTATT
1 TTTTATTTATT
16395669 TTTTATTTATT
1 TTTTATTTATT
* * * *
16395680 ATATATATATA
1 TTTTATTTATT
* *
16395691 TATT-TTTACGT
1 TTTTATTTA-TT
16395702 TTTTA-TTATT
1 TTTTATTTATT
16395712 TTATTA-TTATT
1 TT-TTATTTATT
*
16395723 TTATTATATATT
1 TT-TTATTTATT
16395735 TTTT-TCTTATT
1 TTTTAT-TTATT
16395746 TTTATATTTATT
1 TTT-TATTTATT
16395758 ACTTTATATTTACTT
1 --TTT-TATTTA-TT
*
16395773 TCTTTATCTTATC
1 T-TTTAT-TTATT
16395786 TTTTATTTAATT
1 TTTTATTT-ATT
*
16395798 TGTTT-TTTCTT
1 T-TTTATTTATT
16395809 CATTTTAATTTTATT
1 --TTTT-A-TTTATT
16395824 TATTTATTTATT
1 T-TTTATTTATT
16395836 CCTTACCTTT
Statistics
Matches: 128, Mismatches: 18, Indels: 40
0.69 0.10 0.22
Matches are distributed among these distances:
10 11 0.09
11 47 0.37
12 32 0.25
13 13 0.10
14 18 0.14
15 7 0.05
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.71
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:16395678 original size:40 final size:38
Alignment explanation
Indices: 16395604--16395794 Score: 138
Period size: 40 Copynumber: 4.9 Consensus size: 38
16395594 TTTTTTTAGA
* * *
16395604 TTATATATATATATATTTTTTTA-TTATCAGTTTATTAAT
1 TTATATATAT-TTTATTTTTTTATTTTTTA-TTTATTAAT
16395643 TTATATATATTTACTATTTTTTTATTTTTTATTTATTATAT
1 TTATATATATTT--TATTTTTTTATTTTTTATTTATTA-AT
* ** *
16395684 ATATATATATTTTTACGTTTTTATTATTTTA-TTATTATT
1 TTATATATA-TTTTATTTTTTTATT-TTTTATTTATTAAT
* *
16395723 TTAT-TATATATTT-TTTTCTTATTTTTATATTTATTACT
1 TTATATATAT-TTTATTTTTTTATTTTT-TATTTATTAAT
* * * * *
16395761 TTATATTTACTTTCTTTATCTTATCTTTTATTTA
1 TTATATATATTTTATTT-TTTTATTTTTTATTTA
16395795 ATTTGTTTTT
Statistics
Matches: 125, Mismatches: 15, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
36 3 0.02
37 10 0.08
38 22 0.18
39 26 0.21
40 42 0.34
41 19 0.15
42 3 0.02
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.68
Consensus pattern (38 bp):
TTATATATATTTTATTTTTTTATTTTTTATTTATTAAT
Found at i:16395757 original size:23 final size:23
Alignment explanation
Indices: 16395707--16395757 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
16395697 TACGTTTTTA
16395707 TTATTTTATTATTATTTTATTAT
1 TTATTTTATTATTATTTTATTAT
* * *
16395730 ATATTTTTTTCTTATTTT-TATAT
1 TTATTTTATTATTATTTTAT-TAT
16395753 TTATT
1 TTATT
16395758 ACTTTATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (23 bp):
TTATTTTATTATTATTTTATTAT
Found at i:16395765 original size:14 final size:15
Alignment explanation
Indices: 16395746--16395779 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
16395736 TTTTCTTATT
16395746 TTTATATTTA-TTAC
1 TTTATATTTACTTAC
*
16395760 TTTATATTTACTTTC
1 TTTATATTTACTTAC
16395775 TTTAT
1 TTTAT
16395780 CTTATCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTATATTTACTTAC
Found at i:16397384 original size:3 final size:3
Alignment explanation
Indices: 16397376--16397415 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
16397366 TCATAATTTA
16397376 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16397416 TTTAGTGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16401737 original size:43 final size:43
Alignment explanation
Indices: 16401676--16401766 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
16401666 TTCCATTCTT
*
16401676 ATGATACTTTATGTTAAGAGAAGTTTAGATATATTCTTTGACA
1 ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
16401719 ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
1 ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
16401762 ATGAT
1 ATGAT
16401767 TATTATTCTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (43 bp):
ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
Found at i:16408093 original size:43 final size:43
Alignment explanation
Indices: 16408032--16408122 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
16408022 TACCATTCTT
*
16408032 ATGATACTTTATGTTAAGAGAAGTTTAGATATATTCTTTGACA
1 ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
16408075 ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
1 ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
16408118 ATGAT
1 ATGAT
16408123 TATTATTCTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (43 bp):
ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
Found at i:16414467 original size:41 final size:42
Alignment explanation
Indices: 16414410--16414498 Score: 162
Period size: 41 Copynumber: 2.1 Consensus size: 42
16414400 TACCATTCTT
16414410 ATGATACTTTATGTTAAGAGAAGTTTAGATAT-TCTTTGACA
1 ATGATACTTTATGTTAAGAGAAGTTTAGATATATCTTTGACA
16414451 ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
1 ATGATACTTTATGTTAAGAGAAGTTTAGATAT-ATCTTTGACA
16414494 ATGAT
1 ATGAT
16414499 TATTTCTATT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 32 0.70
43 14 0.30
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (42 bp):
ATGATACTTTATGTTAAGAGAAGTTTAGATATATCTTTGACA
Found at i:16420845 original size:43 final size:43
Alignment explanation
Indices: 16420784--16420874 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
16420774 TACCATTCTT
*
16420784 ATGATACTTTATGTTAAGAGAAGTTTAGATATATTCTTTGACA
1 ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
16420827 ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
1 ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
16420870 ATGAT
1 ATGAT
16420875 TATTATTCTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (43 bp):
ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
Found at i:16427213 original size:43 final size:43
Alignment explanation
Indices: 16427152--16427242 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
16427142 TACCATTCTT
*
16427152 ATGATACTTTATGTTAAGAGAAGTTTAGATATATTCTTTGACA
1 ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
16427195 ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
1 ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
16427238 ATGAT
1 ATGAT
16427243 TATTATTCTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (43 bp):
ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
Found at i:16433535 original size:42 final size:41
Alignment explanation
Indices: 16433476--16433563 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 41
16433466 TACCATTCTT
*
16433476 ATGATACTTATGTTAAGAGAAGTTTAGATATATTCTTTGACA
1 ATGATACTTATGTTAAGAGAAGTTTAGATATAATC-TTGACA
16433518 ATGATACTTATGTTAAGAGAAGTTTAGATATAATCTTGACA
1 ATGATACTTATGTTAAGAGAAGTTTAGATATAATCTTGACA
16433559 ATGAT
1 ATGAT
16433564 TATTATTATT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 11 0.24
42 34 0.76
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.39
Consensus pattern (41 bp):
ATGATACTTATGTTAAGAGAAGTTTAGATATAATCTTGACA
Found at i:16438567 original size:42 final size:43
Alignment explanation
Indices: 16438487--16438576 Score: 164
Period size: 42 Copynumber: 2.1 Consensus size: 43
16438477 TACCATTCTT
*
16438487 ATGATACTTTATGTTAAGAGAAGTTTAGATATATTCTTTGACA
1 ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
16438530 ATGATACTTTATGTTAAGAG-AGTTTAGATATAATCTTTGACA
1 ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
16438572 ATGAT
1 ATGAT
16438577 TATTATTCTA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 26 0.57
43 20 0.43
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.41
Consensus pattern (43 bp):
ATGATACTTTATGTTAAGAGAAGTTTAGATATAATCTTTGACA
Found at i:16441398 original size:37 final size:37
Alignment explanation
Indices: 16441356--16441437 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
16441346 TATTTCGGTT
* * * *
16441356 GGTCGGGTCGGGTGGAGGGTATATATTTTTCGGGTCG
1 GGTCGGGTCGGGTGAAAGATATAAATTTTTCGGGTCG
* *
16441393 GGTCGGGTCGGTTGAAAGATATAAATTTTTCGGGTTG
1 GGTCGGGTCGGGTGAAAGATATAAATTTTTCGGGTCG
16441430 GGTCGGGT
1 GGTCGGGT
16441438 TGGTCGAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.15, C:0.10, G:0.43, T:0.33
Consensus pattern (37 bp):
GGTCGGGTCGGGTGAAAGATATAAATTTTTCGGGTCG
Found at i:16452066 original size:19 final size:19
Alignment explanation
Indices: 16452038--16452085 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
16452028 CGAAAAGAAG
16452038 AAAATAAAGGGTTTTGAACA
1 AAAAT-AAGGGTTTTGAACA
16452058 AAAATAAGGGTTTTGAACA
1 AAAATAAGGGTTTTGAACA
16452077 AAAATAAGG
1 AAAATAAGG
16452086 TGTTCTGCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.52, C:0.04, G:0.21, T:0.23
Consensus pattern (19 bp):
AAAATAAGGGTTTTGAACA
Found at i:16452141 original size:21 final size:21
Alignment explanation
Indices: 16452115--16452154 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16452105 CAGAACCCTA
*
16452115 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
16452136 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
16452155 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:16452183 original size:20 final size:21
Alignment explanation
Indices: 16452137--16452197 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
16452127 TTCCCCTGTG
16452137 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
16452160 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
16452180 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
16452198 TGCATCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:16456053 original size:20 final size:21
Alignment explanation
Indices: 16456007--16456053 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
16455997 TGAGTTTGTT
*
16456007 TAATTTTTCAATTTTGAAACA
1 TAATTTTTCAATTTTGAAAAA
*
16456028 TCATTTTT-ATATTTT-AAAAA
1 TAATTTTTCA-ATTTTGAAAAA
16456048 TAATTT
1 TAATTT
16456054 CTCATAATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (21 bp):
TAATTTTTCAATTTTGAAAAA
Found at i:16457993 original size:21 final size:21
Alignment explanation
Indices: 16457967--16458020 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
16457957 GTTATACAAT
16457967 GGGGGAATCGGTA-CCCCTGGG
1 GGGGGAATCGGTACCCCCT-GG
*
16457988 GGGGGAATCGATACCCCCTGG
1 GGGGGAATCGGTACCCCCTGG
16458009 GGGGGAATCGGT
1 GGGGGAATCGGT
16458021 TCCCTCCGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 25 0.83
22 5 0.17
ACGTcount: A:0.17, C:0.22, G:0.46, T:0.15
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCCTGG
Found at i:16460562 original size:21 final size:21
Alignment explanation
Indices: 16460525--16460571 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
16460515 TTTTAAATGT
* *
16460525 TTTTC-AAACTTAGTCGAACA
1 TTTTCAAAACATACTCGAACA
* *
16460545 TTTTCAAAACATACTCGATCG
1 TTTTCAAAACATACTCGAACA
16460566 TTTTCA
1 TTTTCA
16460572 TATTTTTAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (21 bp):
TTTTCAAAACATACTCGAACA
Found at i:16463874 original size:21 final size:21
Alignment explanation
Indices: 16463828--16463910 Score: 89
Period size: 20 Copynumber: 4.0 Consensus size: 21
16463818 TCTTTGGCTC
* *
16463828 AAAGGATCGATCCCTTAG-CA
1 AAAGGATCAATCCCTTTGACA
*
16463848 AAAGGATCAATCCCTTTGACC
1 AAAGGATCAATCCCTTTGACA
*
16463869 AAAGGATCAATCCCCTTGA-A
1 AAAGGATCAATCCCTTTGACA
* * *
16463889 AAAGAATCGATCCCTTGGACA
1 AAAGGATCAATCCCTTTGACA
16463910 A
1 A
16463911 CTGTGAGTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
20 31 0.60
21 21 0.40
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.20
Consensus pattern (21 bp):
AAAGGATCAATCCCTTTGACA
Found at i:16463882 original size:41 final size:41
Alignment explanation
Indices: 16463827--16463904 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
16463817 TTCTTTGGCT
* * *
16463827 CAAAGGATCGAT-CCCTTAGCAAAAGGATCAATCCCTTTGAC
1 CAAAGGATCAATCCCCTT-GAAAAAGAATCAATCCCTTTGAC
*
16463868 CAAAGGATCAATCCCCTTGAAAAAGAATCGATCCCTT
1 CAAAGGATCAATCCCCTTGAAAAAGAATCAATCCCTT
16463905 GGACAACTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 27 0.84
42 5 0.16
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (41 bp):
CAAAGGATCAATCCCCTTGAAAAAGAATCAATCCCTTTGAC
Found at i:16463973 original size:21 final size:20
Alignment explanation
Indices: 16463922--16463974 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
16463912 TGTGAGTTTG
*
16463922 GGATCGATCCCTTGACAAAA
1 GGATCGATCCCTCGACAAAA
* * * *
16463942 GGATTGGTCCCTCGAGGAATA
1 GGATCGATCCCTCGA-CAAAA
16463963 GGATCGATCCCT
1 GGATCGATCCCT
16463975 TCCCAAAATG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (20 bp):
GGATCGATCCCTCGACAAAA
Found at i:16467900 original size:11 final size:10
Alignment explanation
Indices: 16467881--16467910 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
16467871 TAATTATCTT
16467881 TTATTATTTA
1 TTATTATTTA
16467891 TTATTTATTTA
1 TTA-TTATTTA
16467902 TTATTATTT
1 TTATTATTT
16467911 TTTTCATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTATTATTTA
Found at i:16468017 original size:13 final size:14
Alignment explanation
Indices: 16467999--16468028 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16467989 TATATTTTTA
16467999 TTTTATT-TTCTTT
1 TTTTATTATTCTTT
16468012 TTTTATTATTCTTT
1 TTTTATTATTCTTT
16468026 TTT
1 TTT
16468029 GTTTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTATTCTTT
Found at i:16468028 original size:31 final size:31
Alignment explanation
Indices: 16467993--16468090 Score: 94
Period size: 31 Copynumber: 3.1 Consensus size: 31
16467983 TACATATATA
16467993 TTTTTATTTTATTTTCTTT-TTTTATTATTCT
1 TTTTTATTTTATTTTCTTTATTTTATT-TTCT
*
16468024 TTTTTGTTTTATTTTACTTTATTCTTATTTT-T
1 TTTTTATTTTATTTT-CTTTATT-TTATTTTCT
* * * *
16468056 TATTTAATTTT-TTTCCTTTGTTTTATTTTCA
1 T-TTTTATTTTATTTTCTTTATTTTATTTTCT
16468087 TTTT
1 TTTT
16468091 ATGTTGTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
30 10 0.18
31 21 0.38
32 9 0.16
33 11 0.20
34 5 0.09
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (31 bp):
TTTTTATTTTATTTTCTTTATTTTATTTTCT
Found at i:16468045 original size:46 final size:45
Alignment explanation
Indices: 16467995--16468084 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 45
16467985 CATATATATT
* *
16467995 TTTATT-TTATTTTCTTTTTTTATTATTCTTT-TTTGTTTTATTTTAC
1 TTTATTCTTATTTT-TTATTTAATT-TT-TTTCTTTGTTTTATTTTAC
16468041 TTTATTCTTATTTTTTATTTAATTTTTTTCCTTTGTTTTATTTT
1 TTTATTCTTATTTTTTATTTAATTTTTTT-CTTTGTTTTATTTT
16468085 CATTTTATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 3 0.08
45 2 0.05
46 27 0.69
47 7 0.18
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (45 bp):
TTTATTCTTATTTTTTATTTAATTTTTTTCTTTGTTTTATTTTAC
Found at i:16468054 original size:28 final size:28
Alignment explanation
Indices: 16468013--16468066 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
16468003 ATTTTCTTTT
* * *
16468013 TTTATTATTCTTTTTTGTTTTATTTTAC
1 TTTATTATTATTTTTTATTTAATTTTAC
*
16468041 TTTATTCTTATTTTTTATTTAATTTT
1 TTTATTATTATTTTTTATTTAATTTT
16468067 TTTCCTTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.76
Consensus pattern (28 bp):
TTTATTATTATTTTTTATTTAATTTTAC
Found at i:16468090 original size:23 final size:22
Alignment explanation
Indices: 16468004--16468084 Score: 64
Period size: 23 Copynumber: 3.8 Consensus size: 22
16467994 TTTTATTTTA
16468004 TTTTCTTT-TTTTA--TTA-TT
1 TTTTCTTTGTTTTATTTTACTT
*
16468022 CTTT-TTTGTTTTATTTTACTT
1 TTTTCTTTGTTTTATTTTACTT
* * * *
16468043 TATTCTTATTTTTTATTTAATTT
1 TTTTCTT-TGTTTTATTTTACTT
16468066 TTTTCCTTTGTTTTATTTT
1 TTTT-CTTTGTTTTATTTT
16468085 CATTTTATGT
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
17 3 0.06
18 8 0.17
20 3 0.06
21 4 0.09
22 2 0.04
23 24 0.51
24 3 0.06
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTCTTTGTTTTATTTTACTT
Found at i:16469891 original size:95 final size:94
Alignment explanation
Indices: 16469778--16469973 Score: 277
Period size: 95 Copynumber: 2.1 Consensus size: 94
16469768 TAAAATATTA
* * * * *
16469778 TATATATACAATAAAGCTTGAGTTGTCCCT-TTAGAGCAATTGTTTAAACTACTCGGCTTTATGG
1 TATATATACAATAAAGCTTGAGCTGTCCCTCTAAGA-CAATTGGTTAAACTACCCAGCTTTATGG
* *
16469842 ATAATATTCAGCTAGCCTGATAAAGGTGAT
65 ATAAGATTCAGCTAACCTGATAAAGGTGAT
* *
16469872 TATACTATACAATAAAGCTTGAGCTGTCCCTCTAAGACAATTGGTTAAACTTCCCATCTTTATGG
1 TATA-TATACAATAAAGCTTGAGCTGTCCCTCTAAGACAATTGGTTAAACTACCCAGCTTTATGG
*
16469937 ATAAGATTCAGCTAACCTGATAAAGGTGTT
65 ATAAGATTCAGCTAACCTGATAAAGGTGAT
16469967 TATATAT
1 TATATAT
16469974 TAAGTTGTCC
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
94 7 0.08
95 79 0.88
96 4 0.04
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (94 bp):
TATATATACAATAAAGCTTGAGCTGTCCCTCTAAGACAATTGGTTAAACTACCCAGCTTTATGGA
TAAGATTCAGCTAACCTGATAAAGGTGAT
Found at i:16471896 original size:21 final size:21
Alignment explanation
Indices: 16471871--16471935 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
16471861 AGACTAATTT
16471871 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* * *
16471892 TCTCTTG--AGATA-GTT-T-
1 TCTCTTGAAACAAATTTTGTC
16471908 TC-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
16471928 TCTCTTGA
1 TCTCTTGA
16471936 GACAGTTTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 4 0.12
16 2 0.06
17 4 0.12
18 4 0.12
19 4 0.12
20 2 0.06
21 12 0.38
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:16471916 original size:36 final size:36
Alignment explanation
Indices: 16471868--16472411 Score: 581
Period size: 36 Copynumber: 15.4 Consensus size: 36
16471858 TTAAGACTAA
*
16471868 TTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGATAG
1 TTTTC-CTTGAAACAAATTTTGTCTCTCTTGAGACAG
16471905 TTTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
16471941 TTTCCCTTGAAACAAA------ATCT-TTGA-ATATG
1 TTTTCCTTGAAACAAATTTTGTCTCTCTTGAGACA-G
** *
16471970 TTTTCCTTGAAACAAATTTCATCTCCCTTGAGACAG
1 TTTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
** *
16472006 TTTCTTTTTGAAACAAATTTTGTCTCTCTTAAGACAG
1 TTT-TCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
16472043 TTTCCCTTGAAACAAAATTTGTCTCTCTTGAGACAG
1 TTTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
16472079 -TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTTC-CTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
16472115 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
16472151 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
** *
16472187 -TTTCTCTTGAAACAAA-----AATCT-TTGA-ATATG
1 TTTTC-CTTGAAACAAATTTTGTCTCTCTTGAGACA-G
* * *
16472217 TTTTCCTTGAAATAAATTTCGTCTCCCTTGAGACAG
1 TTTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * * *
16472253 TCTCTT--TTGGAACTAAGTTTTATCTATCTTGAGACAG
1 T-T-TTCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
*
16472290 -TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTTC-CTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
16472326 TTTCCCTTGAAACAAATTTTGTCTCTCCTGAGACAG
1 TTTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
16472362 TTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAG
1 TTTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
16472398 -TTTCTCTTGAAACA
1 TTTTC-CTTGAAACA
16472412 CCAACCATTG
Statistics
Matches: 428, Mismatches: 49, Indels: 61
0.80 0.09 0.11
Matches are distributed among these distances:
28 2 0.00
29 22 0.05
30 18 0.04
31 7 0.02
34 2 0.00
35 14 0.03
36 292 0.68
37 69 0.16
38 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:16472314 original size:247 final size:246
Alignment explanation
Indices: 16471869--16472411 Score: 890
Period size: 247 Copynumber: 2.2 Consensus size: 246
16471859 TAAGACTAAT
* * *
16471869 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGATAGTTTTCCTTGAAACAAATTTTGTCTCTCTT
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
16471934 GAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCATCTCCCTT
66 GAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCATCTCCCTT
* * * *
16471999 GAGACAGTTTCTTTTTGAAACAAATTTTGTCTCTCTTAAGACAGTTTCCCTTGAAACAAAATTTG
131 GAGACAGTCTCTTTTTGAAACAAATTTTATCTATCTTAAGACAGTTTCCCTTAAAACAAAATTTG
* *
16472064 TCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
196 TCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCCTGAGACAG
16472115 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
* * *
16472180 GAGACAGTTTCTCTTGAAACAAAAATCTTTGAATATGTTTTCCTTGAAATAAATTTCGTCTCCCT
66 GAGACAGTTTCCCTTGAAAC-AAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCATCTCCCT
* * * * *
16472245 TGAGACAGTCTC-TTTTGGAACTAAGTTTTATCTATCTTGAGACAGTTTCTCTTAAAACAAATTT
130 TGAGACAGTCTCTTTTTGAAAC-AAATTTTATCTATCTTAAGACAGTTTCCCTTAAAACAAAATT
16472309 TGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCCTGAGACAG
194 TGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCCTGAGACAG
* *
16472362 TTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
16472412 CCAACCATTG
Statistics
Matches: 276, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
246 89 0.32
247 187 0.68
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (246 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTCCTTGAAACAAATTTCATCTCCCTT
GAGACAGTCTCTTTTTGAAACAAATTTTATCTATCTTAAGACAGTTTCCCTTAAAACAAAATTTG
TCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCCTGAGACAG
Found at i:16472523 original size:34 final size:34
Alignment explanation
Indices: 16472465--16472583 Score: 168
Period size: 34 Copynumber: 3.5 Consensus size: 34
16472455 CTGGAGACAG
*
16472465 TTTCTCTTGAAGCAC-AAAAAACCTTTGAAATTA
1 TTTCTCTTGAAACACAAAAAAACCTTTGAAATTA
* *
16472498 TTTTTCTTGAAACACAAAAAAACCTTTGAAATCA
1 TTTCTCTTGAAACACAAAAAAACCTTTGAAATTA
* * *
16472532 TTTCTCTTGAAACACAAAAAAAACTTTGAAAATG
1 TTTCTCTTGAAACACAAAAAAACCTTTGAAATTA
*
16472566 TTTCTCTTGAAACGCAAA
1 TTTCTCTTGAAACACAAA
16472584 GACCTTCGAG
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
33 13 0.17
34 63 0.83
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (34 bp):
TTTCTCTTGAAACACAAAAAAACCTTTGAAATTA
Found at i:16474754 original size:5 final size:5
Alignment explanation
Indices: 16474744--16474848 Score: 72
Period size: 5 Copynumber: 20.4 Consensus size: 5
16474734 ACATATATAT
* * *
16474744 TTTTA TTTTA TTTTA -TTTA TTAT- TTTTG TTGTTG TTTTA TTTTA TTCTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TT-TTA
* * * *
16474794 TTTCT- TTTTA TTTAA TTTTT TCCTTTA TTTTA TTTTCA TTTTA TGTTG
1 TTT-TA TTTTA TTTTA TTTTA T--TTTA TTTTA TTTT-A TTTTA TTTTA
16474842 TTTTA TT
1 TTTTA TT
16474849 GCTATTTTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
4 8 0.10
5 52 0.65
6 16 0.20
7 4 0.05
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:16474760 original size:16 final size:16
Alignment explanation
Indices: 16474741--16474837 Score: 76
Period size: 17 Copynumber: 5.9 Consensus size: 16
16474731 TATACATATA
16474741 TATTTTTATTTTATTT
1 TATTTTTATTTTATTT
16474757 TATTTATTATTTT-TGTT
1 TATTT-TTATTTTAT-TT
16474774 GT-TGTTTTATTTTATTCT
1 -TAT-TTTTATTTTATT-T
*
16474792 TATTTCT-TTTTATTT
1 TATTTTTATTTTATTT
*
16474807 AATTTTT-TCCTTTATTT
1 TATTTTTAT--TTTATTT
*
16474824 TATTTTCATTTTAT
1 TATTTTTATTTTAT
16474838 GTTGTTTTAT
Statistics
Matches: 66, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
15 7 0.11
16 18 0.27
17 34 0.52
18 7 0.11
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.75
Consensus pattern (16 bp):
TATTTTTATTTTATTT
Found at i:16474918 original size:21 final size:21
Alignment explanation
Indices: 16474855--16474923 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 21
16474845 TATTGCTATT
*
16474855 TTTTATTTACTT-TGTT-TCG
1 TTTTATTTATTTATGTTATCG
*
16474874 TTTT-TTTATTTATGTTATCA
1 TTTTATTTATTTATGTTATCG
*
16474894 TTTTATTTA-TTATGCTTATTG
1 TTTTATTTATTTATG-TTATCG
16474915 TTTTTATTT
1 -TTTTATTT
16474924 TTACTTATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 6 0.15
19 8 0.20
20 11 0.27
21 8 0.20
22 8 0.20
ACGTcount: A:0.16, C:0.06, G:0.07, T:0.71
Consensus pattern (21 bp):
TTTTATTTATTTATGTTATCG
Found at i:16477129 original size:110 final size:108
Alignment explanation
Indices: 16476978--16477197 Score: 336
Period size: 110 Copynumber: 2.0 Consensus size: 108
16476968 ATTATTTTTG
*
16476978 AAGAAATATAATTTATTTAAAAATATTTAAACTCCCTAAAATTAA-TTATTTCATTTATTTTTTA
1 AAGAAATATAATTTATTTAAAAATATTTAAACTCCCCAAAATTAATTTATTTCATTT-TTTTTTA
* * *
16477042 TCTTTTTTGTTATAT-AAAAATAGTTCGATTTTTTTTATAAGATAAC
65 TC-TTTTTATTATATCAAAAATAGTTC-A-CTTTTATATAAGATAAC
* *
16477088 AAGAAATATAATTTATTTAAATATATTTAAACTCCCCAAAATTAATTTTTTTCATTTTTTTTTAT
1 AAGAAATATAATTTATTTAAAAATATTTAAACTCCCCAAAATTAATTTATTTCATTTTTTTTTAT
16477153 CTTTTTATTATATCAAAAATAGTTCACTTTTATATAAGATAAC
66 CTTTTTATTATATCAAAAATAGTTCACTTTTATATAAGATAAC
16477196 AA
1 AA
16477198 TAGAGAGTAA
Statistics
Matches: 102, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
108 17 0.17
109 12 0.12
110 63 0.62
111 10 0.10
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.48
Consensus pattern (108 bp):
AAGAAATATAATTTATTTAAAAATATTTAAACTCCCCAAAATTAATTTATTTCATTTTTTTTTAT
CTTTTTATTATATCAAAAATAGTTCACTTTTATATAAGATAAC
Found at i:16479378 original size:21 final size:21
Alignment explanation
Indices: 16479336--16479380 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
16479326 TTGATTGGGC
* *
16479336 TTATATATTTTTTATTATTAT
1 TTATATATTATTTAATATTAT
16479357 TTATATATGTATTTAATA-TAT
1 TTATATAT-TATTTAATATTAT
16479378 TTA
1 TTA
16479381 ATAATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTATATATTATTTAATATTAT
Found at i:16479387 original size:3 final size:3
Alignment explanation
Indices: 16479379--16479459 Score: 126
Period size: 3 Copynumber: 27.0 Consensus size: 3
16479369 TTAATATATT
* * *
16479379 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TTA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
16479427 TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16479460 ATCAATATGG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:16479980 original size:113 final size:114
Alignment explanation
Indices: 16479806--16480457 Score: 796
Period size: 113 Copynumber: 5.7 Consensus size: 114
16479796 TTTTTATGAA
* * * *
16479806 CTTCTT-CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTATCTGGCAATGTTAATCCATC
1 CTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGTTGATCCATC
*
16479870 AAATGATGAATTTAAATAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
64 AAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
* * *
16479921 ATTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA
1 CTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGTTGATCCATCAA
* * * * *
16479985 ATGATGGATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATGAATTT
66 ATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
* * * *
16480034 CTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTC-CTTGGCAATGTTAATCCAT
1 CTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTCTC-TGGAAAAGTTGATCCAT
16480098 CAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
63 CAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
* * * *
16480150 ATTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGACCCATCAA
1 CTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGTTGATCCATCAA
* * * *
16480214 ATGATGGATTTGAGA-AAAAGATTGAACAAATTCTTCTCATTATGAATTT
66 ATGATGAATTT-AAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
* ****
16480263 CTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTC-CTTGGTGCTGTTGATCCAT
1 CTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTCTC-TGGAAAAGTTGATCCAT
* * * * *
16480327 CAAATGATGAATTCAAGCAAAAGGGTTAAACAAGTTCTTCTTATTATGAACTT
63 CAAATGATGAATTTAAACAAAA-GGTTGAACAAATTCTTCTCATTATGAACTT
*** **
16480380 CTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATTGA
1 CTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGTTGATCCATCAA
*
16480444 ATGATGGATTTAAA
66 ATGATGAATTTAAA
16480458 TCTTTGCTAA
Statistics
Matches: 456, Mismatches: 67, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
113 195 0.43
114 50 0.11
115 9 0.02
116 160 0.35
117 42 0.09
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (114 bp):
CTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGTTGATCCATCAA
ATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
Found at i:16480122 original size:229 final size:229
Alignment explanation
Indices: 16479806--16480454 Score: 1077
Period size: 229 Copynumber: 2.8 Consensus size: 229
16479796 TTTTTATGAA
*
16479806 CTTCTTC-TTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT-ATCTGGCAATGTTAATCCAT
1 CTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCT-TGGCAATGTTAATCCAT
*
16479869 CAAATGATGAATTTAAATAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTT
65 CAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTT
16479934 CAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAG
130 CAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAG
*
16479999 CAAAAGATTGAACAAATTCTTCTCATTATGAATTT
195 AAAAAGATTGAACAAATTCTTCTCATTATGAATTT
16480034 CTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCTTGGCAATGTTAATCCATC
1 CTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCTTGGCAATGTTAATCCATC
16480099 AAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTC
66 AAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTC
*
16480164 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGACCCATCAAATGATGGATTTGAGA
131 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGA
16480229 AAAAGATTGAACAAATTCTTCTCATTATGAATTT
196 AAAAGATTGAACAAATTCTTCTCATTATGAATTT
*** *
16480263 CTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCTTGGTGCTGTTGATCCATC
1 CTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCTTGGCAATGTTAATCCATC
* * * * * *
16480328 AAATGATGAATTCAAGCAAAAGGGTTAAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTT
66 AAATGATGAATTTAAACAAAA-GGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTT
**** * **
16480393 CAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGTTGATCCATTGAATGATGGATTT
130 CAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTT
16480455 AAATCTTTGC
Statistics
Matches: 396, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
228 7 0.02
229 295 0.74
230 94 0.24
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (229 bp):
CTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCTTGGCAATGTTAATCCATC
AAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTC
AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGA
AAAAGATTGAACAAATTCTTCTCATTATGAATTT
Found at i:16481535 original size:83 final size:83
Alignment explanation
Indices: 16481244--16481745 Score: 880
Period size: 83 Copynumber: 6.0 Consensus size: 83
16481234 CTTATTTCTA
* * *
16481244 CTATGAGAAAATTCATCTTTTAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
16481309 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* *
16481327 TTATTGGGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAA
1 CTA-TGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAA
16481392 AGAA-ACTTCCAGAAGATG
65 AGAACACTTCCAGAAGATG
16481410 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
16481475 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
16481493 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
16481558 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* * * *
16481576 CTATGAGCACATTCATCTTTCAATTTCAATGATTGGTTCTGCCCAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
16481641 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* * *
16481659 CTATGAGCACATTCATCTTTCAAATTCAATGATTTGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
16481724 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
16481742 CTAT
1 CTAT
16481746 TGAGTCTTCT
Statistics
Matches: 403, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
82 64 0.16
83 278 0.69
84 61 0.15
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (83 bp):
CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:16482945 original size:14 final size:14
Alignment explanation
Indices: 16482926--16483003 Score: 61
Period size: 13 Copynumber: 5.4 Consensus size: 14
16482916 CCCCTCATTT
16482926 TTTTTTCTTTTTTC
1 TTTTTTCTTTTTTC
16482940 TTTTTTTCTCTTTTTTC
1 --TTTTT-TCTTTTTTC
*
16482957 TTTTTCCTTTTTT-
1 TTTTTTCTTTTTTC
* *
16482970 TTCTCTCTTTTTT-
1 TTTTTTCTTTTTTC
*
16482983 TTTCTCTCTTTTTTTC
1 TTT-TTTC-TTTTTTC
16482999 TTTTT
1 TTTTT
16483004 CTTCAAGCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
13 12 0.23
14 11 0.21
15 12 0.23
16 8 0.15
17 9 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTTCTTTTTTC
Found at i:16482945 original size:16 final size:16
Alignment explanation
Indices: 16482924--16483003 Score: 83
Period size: 16 Copynumber: 4.9 Consensus size: 16
16482914 GACCCCTCAT
16482924 TTTTTTTTCTTTTTTC
1 TTTTTTTTCTTTTTTC
16482940 TTTTTTTCTCTTTTTTC
1 TTTTTTT-TCTTTTTTC
*
16482957 TTTTTCCTT-TTTTTTC
1 TTTTT-TTTCTTTTTTC
* *
16482973 TCTCTTTTT-TTTTCTC
1 T-TTTTTTTCTTTTTTC
16482989 TCTTTTTTTCTTTTT
1 T-TTTTTTTCTTTTT
16483004 CTTCAAGCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
16 31 0.57
17 22 0.41
18 1 0.02
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTTTCTTTTTTC
Found at i:16482953 original size:24 final size:24
Alignment explanation
Indices: 16482926--16483003 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 24
16482916 CCCCTCATTT
16482926 TTTTTTCTTTTTTCTTTTTTTCTC
1 TTTTTTCTTTTTTCTTTTTTTCTC
*
16482950 TTTTTTCTTTTTCCTTTTTTTTCTC
1 TTTTTTCTTTTTTC-TTTTTTTCTC
*
16482975 TCTTTTT-TTTTCTCTCTTTTTT-TC
1 T-TTTTTCTTTTTTCT-TTTTTTCTC
16482999 TTTTT
1 TTTTT
16483004 CTTCAAGCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
23 4 0.08
24 17 0.35
25 22 0.46
26 5 0.10
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (24 bp):
TTTTTTCTTTTTTCTTTTTTTCTC
Found at i:16483006 original size:14 final size:13
Alignment explanation
Indices: 16482923--16483006 Score: 78
Period size: 15 Copynumber: 5.9 Consensus size: 13
16482913 TGACCCCTCA
16482923 TTTTTTTTTCTTTT
1 TTTTTTTTTC-TTT
16482937 TTCTTTTTTTCTCTT
1 TT-TTTTTTTCT-TT
16482952 TTTTCTTTTTCCTTT
1 TTTT-TTTTT-CTTT
* *
16482967 TTTTTCTCTCTTT
1 TTTTTTTTTCTTT
*
16482980 TTTTTTCTCTCTTT
1 TTTTTT-TTTCTTT
16482994 TTTTCTTTTTCTT
1 TTTT-TTTTTCTT
16483007 CAAGCATAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
13 9 0.15
14 24 0.40
15 25 0.42
16 2 0.03
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTCTTT
Found at i:16494389 original size:13 final size:14
Alignment explanation
Indices: 16494356--16494404 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
16494346 CTTTTCTTTG
16494356 ATATTAAAAAATAA
1 ATATTAAAAAATAA
**
16494370 ATATTAAAAAATTT
1 ATATTAAAAAATAA
16494384 AT-TTAAAAAAATAA
1 ATATT-AAAAAATAA
16494398 ATTATTA
1 A-TATTA
16494405 TTTAATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 2 0.07
14 22 0.79
15 2 0.07
16 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATATTAAAAAATAA
Found at i:16495824 original size:21 final size:21
Alignment explanation
Indices: 16495782--16495826 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
16495772 TTGATTGGGC
* *
16495782 TTATATATTTTTTATTATTAT
1 TTATATATTATTTAATATTAT
16495803 TTATATATGTATTTAATA-TAT
1 TTATATAT-TATTTAATATTAT
16495824 TTA
1 TTA
16495827 ATAATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTATATATTATTTAATATTAT
Found at i:16495833 original size:3 final size:3
Alignment explanation
Indices: 16495825--16495906 Score: 128
Period size: 3 Copynumber: 27.0 Consensus size: 3
16495815 TTAATATATT
* *
16495825 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
16495873 TAA TAA TAA TAA TTA TAA TAAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
16495907 ATCAATATGG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
3 69 0.96
4 3 0.04
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:16496064 original size:86 final size:86
Alignment explanation
Indices: 16495973--16496132 Score: 239
Period size: 86 Copynumber: 1.9 Consensus size: 86
16495963 TATACAATGC
* *
16495973 CATGCATTTAATATGAATATTTTAATAAAAACATATGCATAAACATTAAAACATTTGCATTTACA
1 CATGCATATAATATGAATATTTTAATAAAAACATAGGCATAAACATTAAAACATTTGCATTTACA
16496038 TATTAAAGAGGCACTAAGTTT
66 TATTAAAGAGGCACTAAGTTT
* ** * ** *
16496059 CATGCATATAATATGTATATTTTAATAAAAATGTAGGCCTGGACGTTAAAACATTTGCATTTACA
1 CATGCATATAATATGAATATTTTAATAAAAACATAGGCATAAACATTAAAACATTTGCATTTACA
16496124 TATTAAAGA
66 TATTAAAGA
16496133 TGTAAGTACT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 65 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.35
Consensus pattern (86 bp):
CATGCATATAATATGAATATTTTAATAAAAACATAGGCATAAACATTAAAACATTTGCATTTACA
TATTAAAGAGGCACTAAGTTT
Found at i:16497215 original size:23 final size:23
Alignment explanation
Indices: 16497189--16497310 Score: 208
Period size: 23 Copynumber: 5.3 Consensus size: 23
16497179 TGTAGCGACG
16497189 AACACTTTCGCGATGCTGGTGAA
1 AACACTTTCGCGATGCTGGTGAA
* *
16497212 AACACTTTTGCGATGTTGGTGAA
1 AACACTTTCGCGATGCTGGTGAA
16497235 AACACTTTCGCGATGCTGGTGAA
1 AACACTTTCGCGATGCTGGTGAA
*
16497258 AACAATTTCGCGATGCTGGTGAA
1 AACACTTTCGCGATGCTGGTGAA
*
16497281 AACACTTTGGCGATGCTGGTGAA
1 AACACTTTCGCGATGCTGGTGAA
16497304 AACACTT
1 AACACTT
16497311 CCTTCGGGTT
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 92 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (23 bp):
AACACTTTCGCGATGCTGGTGAA
Found at i:16497480 original size:33 final size:33
Alignment explanation
Indices: 16497438--16497506 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
16497428 TATAAACCAT
* * *
16497438 AGTATTTTGAGCGATTAGCAATATGACCGTTTG
1 AGTATTTTGAGCGATCAGCAAGATGACCATTTG
* *
16497471 AGTATTTTGAGCGGTCATCAAGATGACCATTTG
1 AGTATTTTGAGCGATCAGCAAGATGACCATTTG
16497504 AGT
1 AGT
16497507 GGTGTAGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.35
Consensus pattern (33 bp):
AGTATTTTGAGCGATCAGCAAGATGACCATTTG
Found at i:16499083 original size:20 final size:22
Alignment explanation
Indices: 16499047--16499093 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
16499037 ATTAAATCCT
16499047 TATTTTTATTGAATAAAAATAA
1 TATTTTTATTGAATAAAAATAA
* *
16499069 TATTTTT-TT-AATAAATATAT
1 TATTTTTATTGAATAAAAATAA
16499089 TATTT
1 TATTT
16499094 CGGTCGAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
21 2 0.09
22 7 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTTTTATTGAATAAAAATAA
Found at i:16506889 original size:21 final size:23
Alignment explanation
Indices: 16506864--16506917 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
16506854 TGATGCAAGG
*
16506864 GGTATCGATACCTGTAT-GAACA
1 GGTATCGATACCTCTATAGAACA
*
16506886 -GTATCGATA-CTCTATAGAAGA
1 GGTATCGATACCTCTATAGAACA
16506907 GGTATCGATAC
1 GGTATCGATAC
16506918 AGAGGGAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 5 0.19
21 13 0.48
22 9 0.33
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (23 bp):
GGTATCGATACCTCTATAGAACA
Found at i:16507301 original size:39 final size:33
Alignment explanation
Indices: 16507223--16507287 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
16507213 AGGTGAGTAC
*
16507223 ATGATAGTAAGTGTAAGATATGCTATAAAAGTT
1 ATGATAATAAGTGTAAGATATGCTATAAAAGTT
*
16507256 ATGATAATAAGTGTAAGATATGCTATGAAAGT
1 ATGATAATAAGTGTAAGATATGCTATAAAAGT
16507288 AAGACTTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.32
Consensus pattern (33 bp):
ATGATAATAAGTGTAAGATATGCTATAAAAGTT
Found at i:16508087 original size:18 final size:18
Alignment explanation
Indices: 16508022--16508074 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
16508012 TTCTATGTGG
* * *
16508022 TCCTTCGGGAGATAGTAA
1 TCCTTCAGGACATAGTGA
16508040 TCCTTCAGGACATAGTGA
1 TCCTTCAGGACATAGTGA
16508058 TCCTTCAGGACATAGTG
1 TCCTTCAGGACATAGTG
16508075 GTCATTCGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (18 bp):
TCCTTCAGGACATAGTGA
Found at i:16521123 original size:24 final size:24
Alignment explanation
Indices: 16521096--16521162 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
16521086 TCATTGGATG
* * *
16521096 TTTTTTCTTTGTTTCAATGATTTT
1 TTTTTTCATTGTTTAAATGATTTC
*
16521120 TTTTTTCCA-TGTTTAAATGCTTTC
1 TTTTTT-CATTGTTTAAATGATTTC
*
16521144 TTTGTTCATTGTTTAAATG
1 TTTTTTCATTGTTTAAATG
16521163 GTTATAATTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 2 0.06
24 33 0.92
25 1 0.03
ACGTcount: A:0.16, C:0.10, G:0.10, T:0.63
Consensus pattern (24 bp):
TTTTTTCATTGTTTAAATGATTTC
Found at i:16529282 original size:22 final size:22
Alignment explanation
Indices: 16529254--16529298 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
16529244 GAGATTCCTC
16529254 CTTCACTTGAAATCTCACAGCA
1 CTTCACTTGAAATCTCACAGCA
*
16529276 CTTCACTTGAAATCTCATAGCA
1 CTTCACTTGAAATCTCACAGCA
16529298 C
1 C
16529299 ACTGACCCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.29
Consensus pattern (22 bp):
CTTCACTTGAAATCTCACAGCA
Found at i:16533627 original size:17 final size:16
Alignment explanation
Indices: 16533582--16533615 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16533572 CATCTTTTAC
*
16533582 TATATATATTTTATTG
1 TATATATCTTTTATTG
16533598 TATATATCTTTTATTG
1 TATATATCTTTTATTG
16533614 TA
1 TA
16533616 CTGTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (16 bp):
TATATATCTTTTATTG
Found at i:16533998 original size:27 final size:27
Alignment explanation
Indices: 16533960--16534013 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
16533950 ACCTCGCTTA
16533960 CCACTGTCTCTCAAATCATGTACATTG
1 CCACTGTCTCTCAAATCATGTACATTG
16533987 CCACTGTCTCTCAAATCATGTACATTG
1 CCACTGTCTCTCAAATCATGTACATTG
16534014 GGCTTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (27 bp):
CCACTGTCTCTCAAATCATGTACATTG
Found at i:16542116 original size:224 final size:221
Alignment explanation
Indices: 16541698--16542144 Score: 720
Period size: 224 Copynumber: 2.0 Consensus size: 221
16541688 ATTGATTTTA
16541698 TGGTTTTTAATTTATATATGTTATGACTTGTGATATTTTTATACCTTTTAATATTGTAAACTTAA
1 TGGTTTTTAATTTATATATGTTATGACTTGTGATATTTTTATACCTTTTAATATTGTAAACTTAA
16541763 AAAAAGTGTTACATATACATTAATATTGCTTTGAATATTATGTAAAATTAAAAAAAAAAATTTAT
66 AAAAAGTGTTACATATACATTAATATTGCTTTGAATATTATGTAAAATTAAAAAAAAAAATTTAT
*
16541828 ATAAAATCTGGTTCAACCATGGTTGAACTCGGTTGAACCAGTGAACCAATACCTTAACCGGTTCA
131 ATAAAATCCGGTTCAACCATGGTTGAACTCGGTTGAACCAGTGAACCAATACCTTAACCGGTTCA
*
16541893 ATGTCCGGTCCGGTTTT-AAAAACAT
196 ATGTCCGGTCCGATTTTAAAAAACAT
* *
16541918 TGGTTTTTAATTTATATTTGTTATGGCTTGTGATA-TTTTATACCTTTTAATATTGTAAACTTAA
1 TGGTTTTTAATTTATATATGTTATGACTTGTGATATTTTTATACCTTTTAATATTGTAAACTT--
* * *
16541982 AAAAAAAGTGTTACATATATATTAATATTGCTTTGAATATTATGTAAAATTAAAAAATATATTAT
64 AAAAAAAGTGTTACATATACATTAATATTGCTTTGAATATTATGTAAAATTAAAAAA-A-A-AAA
* * * *
16542047 TTTATATAAAATCCGGTTCAACCGTGGTTGAA-TCCGGTTGAACCAGTGAACTAGTACCTTCACC
126 TTTATATAAAATCCGGTTCAACCATGGTTGAACT-CGGTTGAACCAGTGAACCAATACCTTAACC
16542111 GGTTCAATGTCCGGTCCGATTTTAAAAAACAT
190 GGTTCAATGTCCGGTCCGATTTTAAAAAACAT
16542143 TG
1 TG
16542145 TCGATAACAC
Statistics
Matches: 209, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
219 27 0.13
220 33 0.16
221 56 0.27
222 1 0.00
223 2 0.01
224 80 0.38
225 10 0.05
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (221 bp):
TGGTTTTTAATTTATATATGTTATGACTTGTGATATTTTTATACCTTTTAATATTGTAAACTTAA
AAAAAGTGTTACATATACATTAATATTGCTTTGAATATTATGTAAAATTAAAAAAAAAAATTTAT
ATAAAATCCGGTTCAACCATGGTTGAACTCGGTTGAACCAGTGAACCAATACCTTAACCGGTTCA
ATGTCCGGTCCGATTTTAAAAAACAT
Found at i:16542194 original size:224 final size:218
Alignment explanation
Indices: 16541724--16542195 Score: 549
Period size: 224 Copynumber: 2.1 Consensus size: 218
16541714 TATGTTATGA
*
16541724 CTTGTGATATTTTTATACCTTTTAATATTGTAAACTTAAAAAAAGTGTTACATATACATTAATAT
1 CTTGTGATA-TTTTATA-CTCTTAATATTGTAAACTTAAAAAAAGTGTTACATATACATTAATAT
*
16541789 TGCTTTGAATATTATGTAAAATTAAAAAAAAAAATTTATATAAAATCTGGTTCAACCATGGTTGA
64 TGCTTTGAATATTATGTAAAATTAAAAAAAAAAATTTATATAAAATCCGGTTCAACCATGGTTGA
*
16541854 ACTCGGTTGAACCAGTGAACCAATACCTTAACCGGTTCAATGTCCGGTCCGGTTTTAAAAACATT
129 ACTCGGTTGAACCAGTGAACCAATACCTTAACCGGTTCAATGTCCGGTCCGATTTTAAAAACATT
*** *** * ***** **
16541919 GGTTTTTAATTTATATTTGTTATGG
194 GGTCGATAACACACATACCAAAAAG
* *
16541944 CTTGTGATATTTTATACCTTTTAATATTGTAAACTTAAAAAAAAAGTGTTACATATATATTAATA
1 CTTGTGATATTTTATA-CTCTTAATATTGTAAACTT--AAAAAAAGTGTTACATATACATTAATA
* * *
16542009 TTGCTTTGAATATTATGTAAAATTAAAAAATATATTATTTTATATAAAATCCGGTTCAACCGTGG
63 TTGCTTTGAATATTATGTAAAATTAAAAAA-A-A-AAATTTATATAAAATCCGGTTCAACCATGG
* * *
16542074 TTGAA-TCCGGTTGAACCAGTGAACTAGTACCTTCACCGGTTCAATGTCCGGTCCGATTTTAAAA
125 TTGAACT-CGGTTGAACCAGTGAACCAATACCTTAACCGGTTCAATGTCCGGTCCGATTTT-AAA
16542138 AACATT-GTCGATAACACACCATCACCAAAAAG
188 AACATTGGTCGATAACACA-CAT-ACCAAAAAG
*
16542170 CGTTGT-A-ATTGTTTTA-TCTTAATATT
1 C-TTGTGATATT-TTATACTCTTAATATT
16542196 AATGTAATAA
Statistics
Matches: 216, Mismatches: 25, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
219 27 0.12
220 9 0.04
221 56 0.26
222 1 0.00
223 2 0.01
224 95 0.44
225 14 0.06
226 8 0.04
227 4 0.02
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.38
Consensus pattern (218 bp):
CTTGTGATATTTTATACTCTTAATATTGTAAACTTAAAAAAAGTGTTACATATACATTAATATTG
CTTTGAATATTATGTAAAATTAAAAAAAAAAATTTATATAAAATCCGGTTCAACCATGGTTGAAC
TCGGTTGAACCAGTGAACCAATACCTTAACCGGTTCAATGTCCGGTCCGATTTTAAAAACATTGG
TCGATAACACACATACCAAAAAG
Found at i:16546819 original size:45 final size:46
Alignment explanation
Indices: 16546770--16546944 Score: 214
Period size: 45 Copynumber: 3.9 Consensus size: 46
16546760 AATGCACCCC
* * *
16546770 TATGCATTTCATCTATGGCATACTTTCATG-CCTTTTATATGCTAT
1 TATGCATTTCATTTATGGCATCCTTTCATGCCCTTTTATAAGCTAT
* *
16546815 TATGCATTTCATTTAT-GCAATCCTTTCATGCCCCTTT-TACGCTAT
1 TATGCATTTCATTTATGGC-ATCCTTTCATGCCCTTTTATAAGCTAT
* * *
16546860 TATACATTTCATTTATGGCATCCTCTCAT-ACCTTTTATAAGCTAT
1 TATGCATTTCATTTATGGCATCCTTTCATGCCCTTTTATAAGCTAT
* * *
16546905 TATGCATCTCATTTATGGTATCCTTCCATGCCCTTTTATA
1 TATGCATTTCATTTATGGCATCCTTTCATGCCCTTTTATA
16546945 CGACATTTTG
Statistics
Matches: 110, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
44 7 0.06
45 87 0.79
46 16 0.15
ACGTcount: A:0.22, C:0.23, G:0.09, T:0.45
Consensus pattern (46 bp):
TATGCATTTCATTTATGGCATCCTTTCATGCCCTTTTATAAGCTAT
Found at i:16546878 original size:90 final size:89
Alignment explanation
Indices: 16546774--16546942 Score: 248
Period size: 90 Copynumber: 1.9 Consensus size: 89
16546764 CACCCCTATG
* * * *
16546774 CATTTCATCTATGGCATACTTTCATGCCTTTTATATGCTATTATGCATTTCATTTATGCAATCCT
1 CATTTCATCTATGGCATACTCTCATACCTTTTATAAGCTATTATGCATCTCATTTATGCAATCCT
*
16546839 TTCATGCCCCTTTTACGCTATTATA
66 TCCATG-CCCTTTTACGCTATTATA
* * **
16546864 CATTTCATTTATGGCATCCTCTCATACCTTTTATAAGCTATTATGCATCTCATTTATGGTATCCT
1 CATTTCATCTATGGCATACTCTCATACCTTTTATAAGCTATTATGCATCTCATTTATGCAATCCT
16546929 TCCATGCCCTTTTA
66 TCCATGCCCTTTTA
16546943 TACGACATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
89 8 0.11
90 62 0.89
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.45
Consensus pattern (89 bp):
CATTTCATCTATGGCATACTCTCATACCTTTTATAAGCTATTATGCATCTCATTTATGCAATCCT
TCCATGCCCTTTTACGCTATTATA
Found at i:16547461 original size:55 final size:55
Alignment explanation
Indices: 16547329--16547583 Score: 377
Period size: 55 Copynumber: 4.7 Consensus size: 55
16547319 ATATATTTCT
* * * * *
16547329 CATATGGAAATTTATACACTTAGTATGGATTTCTTAG-TTCGCACACATAGTGCC
1 CATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCC
** * *
16547383 CATAAAGAAAATCATACACTTAGTATGAATTTCTTAGTTTTGCACTCAAAGTGCC
1 CATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCC
* * *
16547438 CATACGGAAATTCATAAATTTAGTATGAATTTCTTAGTTTTGCACACAAAGTACC
1 CATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCC
*
16547493 CATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCC
1 CATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCC
*
16547548 CATACGGAAATTCATATACTTAGTATGAATTTCTTA
1 CATACGGAAATTCATACACTTAGTATGAATTTCTTA
16547584 ACTTTTTGCA
Statistics
Matches: 179, Mismatches: 21, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
54 32 0.18
55 147 0.82
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.35
Consensus pattern (55 bp):
CATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCC
Found at i:16551922 original size:45 final size:44
Alignment explanation
Indices: 16551846--16551931 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 44
16551836 TCATACTTAT
*
16551846 AATGCACCATATGCATCTCAATTATGCCATCCTTTCGTGCCGAC
1 AATGCACCATATGCATCTCAATTATGCCATCCTTTCATGCCGAC
* * *
16551890 AATGCACCCTTATGCATTTC-ATCTATGGCATCCTTTCATGCC
1 AATGCA-CCATATGCATCTCAAT-TATGCCATCCTTTCATGCC
16551932 TTTTATACGC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 8 0.22
45 28 0.78
ACGTcount: A:0.23, C:0.31, G:0.13, T:0.33
Consensus pattern (44 bp):
AATGCACCATATGCATCTCAATTATGCCATCCTTTCATGCCGAC
Found at i:16551948 original size:45 final size:45
Alignment explanation
Indices: 16551899--16552088 Score: 226
Period size: 45 Copynumber: 4.2 Consensus size: 45
16551889 CAATGCACCC
16551899 TTATGCATTTCATCTATGGCATCCTTTCATGCCTTTTATACGCTA
1 TTATGCATTTCATCTATGGCATCCTTTCATGCCTTTTATACGCTA
*
16551944 TTATGCATTTCATTTAT-GCAATCCTTTCATGCCCCTTTT-TACGCTA
1 TTATGCATTTCATCTATGGC-ATCCTTTCATG--CCTTTTATACGCTA
* * *
16551990 TTATACATTTCATTTATGGCATCCTTTCATGCCTTTTATAAGCTA
1 TTATGCATTTCATCTATGGCATCCTTTCATGCCTTTTATACGCTA
* * * * *
16552035 CTATGCATCTCA-CTTTTGACATCCTTTCATGCCTTTTATATGAC-A
1 TTATGCATTTCATC-TATGGCATCCTTTCATGCCTTTTATACG-CTA
16552080 TTATGCATT
1 TTATGCATT
16552089 GTTATACATC
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
44 8 0.06
45 75 0.60
46 35 0.28
47 8 0.06
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.45
Consensus pattern (45 bp):
TTATGCATTTCATCTATGGCATCCTTTCATGCCTTTTATACGCTA
Found at i:16552016 original size:91 final size:91
Alignment explanation
Indices: 16551899--16552067 Score: 261
Period size: 91 Copynumber: 1.9 Consensus size: 91
16551889 CAATGCACCC
* * * *
16551899 TTATGCATTTCATCTATGGCATCCTTTCATGCCTTTTATACGCTATTATGCATTTCA-TTTATG-
1 TTATACATTTCATCTATGGCATCCTTTCATGCCTTTTATAAGCTACTATGCATCTCACTTT-TGA
16551962 CAATCCTTTCATGCCCCTTTTTACGCTA
65 C-ATCCTTTCATGCCCCTTTTTACGCTA
*
16551990 TTATACATTTCATTTATGGCATCCTTTCATGCCTTTTATAAGCTACTATGCATCTCACTTTTGAC
1 TTATACATTTCATCTATGGCATCCTTTCATGCCTTTTATAAGCTACTATGCATCTCACTTTTGAC
16552055 ATCCTTTCATGCC
66 ATCCTTTCATGCC
16552068 TTTTATATGA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
91 67 0.94
92 4 0.06
ACGTcount: A:0.21, C:0.25, G:0.09, T:0.44
Consensus pattern (91 bp):
TTATACATTTCATCTATGGCATCCTTTCATGCCTTTTATAAGCTACTATGCATCTCACTTTTGAC
ATCCTTTCATGCCCCTTTTTACGCTA
Found at i:16552196 original size:68 final size:68
Alignment explanation
Indices: 16552113--16552717 Score: 881
Period size: 68 Copynumber: 8.9 Consensus size: 68
16552103 CTTTTACTCG
* * * * * *
16552113 AAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTCTCTGTAAAATGCACAGTTAGACA
1 AAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
16552178 TCA
66 TCA
* * *
16552181 AAGGCACTTAGCCTTTCATGTAACTGGCATAATTGACACCTTTCTGTCAAACGCATAGTTAGGCC
1 AAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
16552246 TCA
66 TCA
* * * *
16552249 AACGCATTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAACGCACAGTTAGGCC
1 AAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
16552314 TCA
66 TCA
* * *
16552317 AAGACACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATACACAGTTAGGCC
1 AAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
16552382 TCA
66 TCA
* * *
16552385 AAGGCACTTAGTCTTTCATATAACTGGCATAATTCACACCTTTCTGT-AGAATGCACAGTTAGGC
1 AAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCA-AATGCACAGTTAGGC
16552449 CTCA
65 CTCA
* *
16552453 AAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCATAGTTAGG-C
1 AAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
16552517 TCA
66 TCA
* * * **
16552520 AAGGCATTTAGCCTTTCATCTGACTGGCATAATTGACACCTTTTTGTCAAATATACAGTTAGGCC
1 AAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
16552585 TCA
66 TCA
* *
16552588 AAGGCACTTAGTCTTTCATCTAACTGGTATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
1 AAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
16552653 TCA
66 TCA
* * * * * *
16552656 AAGGCACGTAGCCTTTCATCTAACTAGCATAATTGACACCTTTGTGTTAAATGTATAGTTAG
1 AAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAG
16552718 ACTATTAATC
Statistics
Matches: 481, Mismatches: 53, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
67 61 0.13
68 419 0.87
69 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (68 bp):
AAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCC
TCA
Found at i:16552614 original size:203 final size:204
Alignment explanation
Indices: 16552113--16552717 Score: 917
Period size: 203 Copynumber: 3.0 Consensus size: 204
16552103 CTTTTACTCG
* * * * * * *
16552113 AAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTCTCTGTAAAATGCACAGTTAGACA
1 AAGGCATTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATACACAGTTAGGCC
* * * *
16552178 TCAAAGGCACTTAGCCTTTCATGTAACTGGCATAATTGACACCTTTCTGTCAAACGCATAGTTAG
66 TCAAAGGCACTTAGTCTTTCATATAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAG
* * * * *
16552243 GCCTCAAACGCATTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAACGCACAGT
131 GCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCATAGT
16552308 TAGGCCTCA
196 TAGGCCTCA
* *
16552317 AAGACACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATACACAGTTAGGCC
1 AAGGCATTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATACACAGTTAGGCC
*
16552382 TCAAAGGCACTTAGTCTTTCATATAACTGGCATAATTCACACCTTTCTGT-AGAATGCACAGTTA
66 TCAAAGGCACTTAGTCTTTCATATAACTGGCATAATTGACACCTTTCTGTCA-AATGCACAGTTA
*
16552446 GGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCATAG
130 GGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCATAG
16552511 TTAGG-CTCA
195 TTAGGCCTCA
* * *
16552520 AAGGCATTTAGCCTTTCATCTGACTGGCATAATTGACACCTTTTTGTCAAATATACAGTTAGGCC
1 AAGGCATTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATACACAGTTAGGCC
* *
16552585 TCAAAGGCACTTAGTCTTTCATCTAACTGGTATAATTGACACCTTTCTGTCAAATGCACAGTTAG
66 TCAAAGGCACTTAGTCTTTCATATAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAG
* * * * *
16552650 GCCTCAAAGGCACGTAGCCTTTCATCTAACTAGCATAATTGACACCTTTGTGTTAAATGTATAGT
131 GCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCATAGT
16552715 TAG
196 TAG
16552718 ACTATTAATC
Statistics
Matches: 365, Mismatches: 34, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
203 187 0.51
204 178 0.49
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (204 bp):
AAGGCATTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAAATACACAGTTAGGCC
TCAAAGGCACTTAGTCTTTCATATAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAG
GCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCATAGT
TAGGCCTCA
Found at i:16553060 original size:57 final size:56
Alignment explanation
Indices: 16552932--16553203 Score: 331
Period size: 55 Copynumber: 4.9 Consensus size: 56
16552922 AAATATATTT
* * ** *
16552932 CCCATAC-AGAAATTCATACACTTAGTATGGATTTGTTAG--TTCACACACATAGTG
1 CCCATACGA-AAATTCATACACTTAGTATGAATTTCTTAGTTTTTGCACACAAAGTG
* *
16552986 CCCATACAGAAAA-TCATACACTTATTGTGAATTTCTTAGTTTTTTGCACACAAAGTG
1 CCCATAC-GAAAATTCATACACTTAGTATGAATTTCTTAG-TTTTTGCACACAAAGTG
*
16553043 CCTATACGAAAATTCATACACTTAGTATGAATTTCTTAG-TTTTGCACACAAAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTTGCACACAAAGTG
* * *
16553098 CCCATATGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTT-CACACAAAGTA
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTTGCACACAAAGTG
* * * *
16553153 CCCATATGAAAATTCATATACTTAGTACGAATTTCTTAACTTTTTGCACAC
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTT-AGTTTTTGCACAC
16553204 TCAGTGCCAT
Statistics
Matches: 191, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
54 29 0.15
55 99 0.52
56 16 0.08
57 47 0.25
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (56 bp):
CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTTGCACACAAAGTG
Done.